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Waters Xevo G3 QTof Overview And Maintenance Manual

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Xevo G3 QTof
Overview and Maintenance Guide
715007811
Copyright © Waters Corporation 2023
Version 02
All rights reserved

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Summary of Contents for Waters Xevo G3 QTof

  • Page 1 Xevo G3 QTof Overview and Maintenance Guide 715007811 Copyright © Waters Corporation 2023 Version 02 All rights reserved...

  • Page 2: General Information

    This document is believed to be complete and accurate at the time of publication. In no event shall Waters Corporation be liable for incidental or consequential damages in connection with, or arising from, its use. For the most recent revision of this document, consult the Waters website (www.waters.com).

  • Page 3: Customer Comments

    Contacting Waters Contact Waters with technical questions regarding the use, transportation, removal, or disposal of any Waters product. You can reach us through the Internet, telephone, fax, or conventional mail. Contact method Information www.waters.com The Waters website includes contact information for Waters locations worldwide.

  • Page 4: Additional Resources

    Milford, MA 01757 From the USA or Canada, phone 800-252-4752 or fax 508-872-1990. Additional resources Waters provides the following additional resources to ensure your continued success with our products. Knowledge base: Obtain quick answers to your troubleshooting questions. Access support articles on Waters instrumentation, informatics, and chemistry.

  • Page 5: Intended Use Of The Xevo G3 Qtof

    The Xevo G3 QTof is for general scientific and research purposes and is not intended for use in diagnostic applications. The Xevo G3 QTof is intended for use in a laboratory environment only. It is not intended for use as an IVD medical device.

  • Page 6: Quality Control

    When calibrating mass spectrometers, consult the instrument’s online Help system for calibration instructions. Quality control Routinely run three QC samples that represent subnormal, normal, and above-normal levels of a compound. If sample trays are the same or very similar, vary the location of the QC samples in the trays.

  • Page 7: Ism Classification: Ism Group 1 Class A

    Milford, MA 01757 Safety considerations Some reagents and samples used with Waters instruments and devices can pose chemical, biological, or radiological hazards (or any combination thereof). You must know the potentially hazardous effects of all substances you work with. Always follow good laboratory practices and consult your organization’s standard operating procedures as well as your local requirements for...

  • Page 8: Applicable Symbols

    For compliance with Waste Electrical and Electronic Equipment legislation, contact Waters Corporation for the correct disposal and recycling instructions March 21, 2023, 715007811 Ver. 02 Page viii...

  • Page 9: Safety Hazard Symbol Notice

    Symbol Definition For indoor use only No pushing Do not connect to an LC system Indicates the maximum load you can place on 10kg that item (for example, 10kg) Serial number Part number, catalog number Safety hazard symbol notice symbol indicates a potential hazard. Consult the documentation for important information about the hazard and the appropriate measures to prevent and control the hazard.

  • Page 10: Considerations Specific To The Device

    Solvent leakage hazard The source exhaust system is designed to be robust and leak-tight. Waters recommends that you perform a hazard analysis, assuming a maximum leak into the laboratory atmosphere of 10% LC eluate.

  • Page 11: Bottle Placement Prohibition

    Bottle placement prohibition Warning: To avoid injury from electrical shock or fire, and damage to the equipment, follow these guidelines: • Do not expose the workstation or ancillary equipment to dripping or splashing liquids. • Do not place objects filled with liquid, such as solvent bottles, on top of the workstation or ancillary equipment.
  • Page 12 Mass spectrometer high-temperature hazard Source ion block assembly Desolvation heater Hazards associated with removing an instrument from service Warning: To avoid personal contamination with biologically hazardous, toxic, and corrosive materials, wear chemical-resistant, powder-free gloves and protective eyewear when performing this procedure. Warning: To avoid puncture injuries, handle sample needles, syringes, fused silica lines, and borosilicate tips with extreme care.

  • Page 13: Safe Disposal

    Do not dispose of the instrument or return it to Waters for repair until the authority responsible for approving its removal from the premises specifies the extent of decontamination required and the level of residual contamination permissible.

  • Page 14: Table Of Contents

    Audience and purpose..........................ii Copyright notice............................ii Trademarks.............................ii Customer comments..........................iii Contacting Waters..........................iii Additional resources........................iv Intended use of the Xevo G3 QTof......................v Calibrating.............................. v Quality control............................vi Analyzing samples from a complex matrix..................vi EMC considerations..........................vi FCC radiation emissions notice.......................vi Canada spectrum management emissions notice................vi ISM classification: ISM group 1 class A..................vii...
  • Page 15 1.3 ACQUITY UPLC/Xevo G3 QTof MS systems.................23 1.3.1 Compatible systems......................23 1.3.2 Waters software ACQUITY UPLC system................23 1.3.3 Waters ACQUITY UPLC/Xevo G3 QTof MS System............24 1.3.4 ACQUITY UPLC M-Class system..................25 1.4 Software and data system......................26 1.4.1 MassLynx software....................... 27 1.4.2 waters_connect software......................
  • Page 16 2.4 Verifying the instrument’s state of readiness..................41 2.5 Monitoring the mass spectrometer LEDs..................41 2.6 Tuning and calibration information....................42 2.7 Flow rates for the Xevo G3 QTof system..................42 2.8 Preparing the fluidics system......................43 2.8.1 Installing the reservoir bottles....................43 2.8.2 Installing the low-volume vials....................
  • Page 17 4.2 Installing the NanoLockSpray source.....................80 4.3 Selecting and configuring the NanoLockSpray source..............82 4.4 Deploying the sprayer platform adjuster assembly................ 83 4.4.1 Moving the sprayer platform out of the source..............83 4.4.2 Moving the sprayer platform into the source.................83 4.5 Adjusting the sprayer tip position....................83 4.6 Setting up the camera........................
  • Page 18 6.7 Removing O-rings and seals......................113 6.7.1 O-ring removal kit........................113 6.8 Maintaining the source shield assemblies..................114 6.8.1 Removing the ESI, ESCi, APCI, or ASAP source shield.............116 6.8.2 Removing the UniSpray source shield................119 6.8.3 Cleaning the source shield components................121 6.8.4 Fitting the ESI, ESCi, APCI, or ASAP source shield............122 6.8.5 Fitting the UniSpray source shield..................
  • Page 19 6.19.1 Handling the StepWave ion guide assembly..............168 6.19.2 Removing the ion block support from the source assembly..........168 6.19.3 Removing the StepWave assembly from the source assembly........170 6.19.4 Disassembling the StepWave ion guide assembly............174 6.19.5 Cleaning the StepWave ion guide assembly..............176 6.19.6 Assembling the StepWave ion guide assembly..............
  • Page 20 A.1.1 Specific warnings........................249 A.2 Notices............................251 A.3 Bottles Prohibited symbol......................251 A.4 Required protection........................251 A.5 Warnings that apply to all Waters instruments and devices............252 A.6 Warnings that address the replacement of fuses.................256 A.7 Electrical symbols........................257 A.8 Handling symbols.........................258 B External connections....................260 B.1 Mass spectrometer external wiring and vacuum connections.............
  • Page 21 B.8 Connecting the workstation (systems with no ACQUITY LC)............275 B.8.1 Connecting to the workstation.................... 275 B.9 Connecting Ethernet cables (systems with ACQUITY LC)............276 B.10 Input/output signal connectors....................276 B.10.1 Signal connections......................278 B.11 Connecting the contact-closure cable to an ACQUITY LC............281 B.12 Connecting to the electricity source...................

  • Page 22: Waters Xevo G3 Qtof Overview

    Ionization Mass Spectrometry (REIMS) (Page 32)) Notes: • For the instrument’s specifications, consult the Waters Xevo G3 QTof Site Preparation Guide (715007914). • Available source options can vary depending on the software you use to operate the Xevo G3 QTof. For more information about source compatibility, refer to the Waters Knowledge Base or the product pages on waters.com.

  • Page 23: Automation And Fluidics

    1.3 ACQUITY UPLC/Xevo G3 QTof MS systems The Waters Xevo G3 QTof is compatible with ACQUITY UPLC systems. If you are not using an ACQUITY UPLC system, refer to the documentation relevant to your LC system. 1.3.1 Compatible systems The Waters Xevo G3 QTof is compatible with the following ACQUITY UPLC systems: •...

  • Page 24: Waters Acquity Uplc/Xevo G3 Qtof Ms System

    Waters LC Driver Pack, which is designed to work with MS and CDS platforms. For additional information, see the Release Notes, the Installation and Configuration Guide, and the corresponding Overview and Maintenance Guides. For additional information, see the ACQUITY UPLC System Operator's Guide (71500082502) or Controlling Contamination in LC/MS Systems (715001307).

  • Page 25: Acquity Uplc M-Class System

    The ACQUITY UPLC M-Class system includes a binary solvent manager, an auxiliary solvent manager if present, a sample manager, a column heater, a sample organizer, detectors, and a specialized ACQUITY UPLC M-Class column. Waters informatics software controls the system. For further information, see the ACQUITY UPLC M-Class System Guide (715003588) or Controlling Contamination in LC/MS Systems (715001307).

  • Page 26: Software And Data System

    Figure 1–2: ACQUITY UPLC M-Class/Xevo G3 QTof MS system Access door to the fluidics pumps and fluidics valves Source interface sliding door NanoLockSpray source enclosure Xevo G3 QTof µBinary solvent manager µSample manager - fixed loop Trap valve manager Solvent tray 1.4 Software and data system...

  • Page 27: Masslynx Software

    • Reviewing data • Printing data Note: For more information on what sources and inlets are compatible with the Xevo G3 QTof, and whether they support MassLynx, waters_connect, or both, refer to the Waters Knowledge Base or the product pages on waters.com.

  • Page 28: Lockspray Source And Ionization Modes

    Configuring the LockSpray II source (Page 48)), and with the ASAP ionization mode (see Atmospheric Solids Analysis Probe Operator's Guide Supplement (715002034). Figure 1–3: Xevo G3 QTof fitted with LockSpray source LockSpray source March 21, 2023, 715007811 Ver. 02 Page 28...

  • Page 29: Electrospray Ionization (Esi)

    1.5.1 Electrospray ionization (ESI) In ESI, a strong electrical charge is applied to the eluent as it emerges from a nebulizer. The droplets that compose the resultant aerosol undergo a reduction in size (solvent evaporation). As solvent continues to evaporate, the charge density increases until the droplet surfaces eject ions (ion evaporation).

  • Page 30: Nanolockspray Source And Ionization Modes

    Setting up the camera (Page 84). Figure 1–4: Xevo G3 QTof fitted with NanoLockSpray source NanoLockSpray source Options shown in the following table are available for the spraying capillary: March 21, 2023, 715007811 Ver. 02...

  • Page 31: Atmospheric Pressure Gas Chromatography (Apgc)

    1.7 Atmospheric pressure gas chromatography (APGC) The Waters APGC couples an Agilent GC with the Xevo G3 QTof. Doing so enables you to perform LC and GC analyses in the same system without compromising performance. The APGC provides complementary information to the LC/MS instrument, enabling analysis of compounds of low molecular weight and low-to-intermediate polarity.

  • Page 32: Rapid Evaporative Ionization Mass Spectrometry (Reims)

    See REIMS Operator's Maintenance Guide (715004683) for further details. 1.11 HDX (Hydrogen Deuterium Exchange) Pairing the Xevo G3 QTof with an ACQUITY UPLC M-Class System with HDX Technology creates a research tool capable of analyzing protein dynamics and measuring changes to protein conformation.

  • Page 33: Fluidics System Physical Layout

    Notice: To avoid damaging the fluidics system, do not connect the UPC system to the IntelliStart fluidics. See the ACQUITY UPC System Guide (715004521) for information on how to plumb the UPC LC to the instrument. 1.12.2 Fluidics system physical layout The flow sensor and grounded union are optional fittings if you fit the LockSpray source.
  • Page 34 Access door LockSpray selector valve Optional flow sensor Sample selector valve Grounded union Diverter valve 500-mL lock mass bottle (B) 30-mL calibrant bottle (C) 30-mL sample bottle (A) 500-mL wash bottle Tubing guides Tubing guides The fluidics system consists of these components: •...

  • Page 35: System Operation

    Note: During normal operation, keep the instrument access doors closed. 1.12.3 System operation You configure the fluidics system using the instrument software, in which you can edit parameter settings, frequency, and the extent of the automation. During auto-calibration, the software automatically controls lock mass and sample delivery.
  • Page 36 Figure 1–6: Ion optics overview Sample sprayer Sample cone LockSpray sprayer Quadrupole pDRE lens XS collision cell Tof housing Reflectron Detector Pusher To vacuum pump Transfer lenses To vacuum pumps March 21, 2023, 715007811 Ver. 02 Page 36...

  • Page 37: Leak Sensors

    1.5 mL of accumulated leaked liquid in its surrounding reservoir. At the same time, the software displays an error message alerting you that a leak has developed. Consult the Waters ACQUITY UPLC Leak Sensor Maintenance Instructions (71500082506) for complete details.

  • Page 38: Preparing The Mass Spectrometer For Operation

    This chapter describes how to start and shut down the mass spectrometer. 2.1 Preparing to start the mass spectrometer The Waters Xevo G3 QTof is compatible with several types of ACQUITY UPLC systems. See ACQUITY UPLC/Xevo G3 QTof MS systems (Page 23) for details of compatible ACQUITY UPLC systems.

  • Page 39: Starting The Mass Spectrometer Using Masslynx Software

    3. Ensure that the collision gas supply is connected to the instrument’s collision cell gas inlet (see the figure in Connecting to the nitrogen gas supply (Page 268)). Requirement: The collision gas is argon. It must be dry and of high purity (99.997%). Regulate the supply at 50 kPa (0.5 bar, 7 psi).

  • Page 40: Starting The Mass Spectrometer Using Waters_Connect Software

    Tip: The Operate LED remains off. c. Wait a minimum of three hours for the instrument to be fully pumped-down (evacuated). Tips: • In the Instrument Console, the System Ready indicator shows green when the instrument is fully pumped-down (evacuated). •...

  • Page 41: Verifying The Instrument's State Of Readiness

    6. Navigate to the system control panel within the software. 7. From the Console Navigation pane on the left-hand side of the window, in the System pane, click the instrument (Xevo G3 QTof). 8. To pump the instrument, click Maintain > Maintenance > Vacuum > Pump Instrument.

  • Page 42: Tuning And Calibration Information

    2.7 Flow rates for the Xevo G3 QTof system The Xevo G3 QTof system can run at high flow rates. To optimize desolvation and sensitivity, run the system at appropriate gas flows and desolvation temperatures.

  • Page 43: Preparing The Fluidics System

    Table 2–2: Flow rate versus temperature and gas flow (continued) Flow rate (mL/min) Source temperature Desolvation Desolvation gas (°C) temperature (°C) flow (L/h) >0.500 1200 2.8 Preparing the fluidics system For additional information, see Fluidics system physical layout (Page 33). Warning: To avoid injuries from broken glass, falling objects, or exposure to toxic substances, do not place containers directly on top of the instrument or on its front...

  • Page 44: Installing The Low-Volume Vials

    Figure 2–1: Installing the reservoir bottles WASH - W SAMPLE - A CALIBRANT - C LOCKMASS - B Solvent delivery tube Reservoir bottle 3. For each reservoir bottle, ensure that the ends of the solvent delivery tubes are positioned so that they are close to, but not touching, the bottom of the bottle (see Adjusting the solvent delivery tube positions (Page 45)).

  • Page 45: Adjusting The Solvent Delivery Tube Positions

    Warning: To avoid laceration injuries caused by the shattering of fragile, low- volume glass vials, take care when installing them and never use force. 3. Screw the low-volume vials into the adapters. 4. For each low-volume vial, ensure that the ends of the solvent delivery tubes are positioned so that they are close to, but do not touch, the bottom of the vial (see Adjusting the solvent delivery tube positions (Page...

  • Page 46: Restarting The Mass Spectrometer

    Requirement: Ensure that the end of the tubing is fully submerged in the solvent in the wash reservoir. Tip: Depending on the solutions you use, the system can require more than one purge cycle to minimize carryover. 2.9 Restarting the mass spectrometer Restart the mass spectrometer when either of these conditions apply: •...

  • Page 47: Emergency Shutdown Of The Mass Spectrometer

    2.11 Emergency shutdown of the mass spectrometer Warning: To avoid electric shock, observe the following procedure to isolate the instrument from the main power supply. Notice: To avoid losing data, use the following procedure only in an emergency. To restart the mass spectrometer, follow the procedure in the section "Restarting the mass spectrometer".

  • Page 48: Configuring The Lockspray Source

    3 Configuring the LockSpray Source This chapter explains how to configure the LockSpray source for the following ionization modes: • ESI (electrospray ionization) • APCI (atmospheric pressure ionization) • ESCi (combined electrospray and atmospheric pressure ionization) 3.1 Configuring the LockSpray II source The following table summarizes how you configure the LockSpray II source for the various ionization modes.

  • Page 49: Esi Mode

    Figure 3–1: Standard source enclosure Reference sprayer port Vernier Probe adjuster assembly 3.2.1 ESI mode To operate in ESI mode, you must fit the ESI probe adapter to the source enclosure and install a probe assembly. The ESI probe adapter fitted with a standard ESI probe assembly accommodates eluent flow rates as fast as 2 mL/min.

  • Page 50: Asap Mode

    The APCI interface consists of the ESI/APCI/ESCi enclosure fitted with a corona pin and an APCI probe adapter. Mobile phase from the LC column enters the probe, where it is pneumatically converted to an aerosol, rapidly heated, and vaporized or gasified at the probe tip. Figure 3–2: APCI mode APCI probe Corona pin...
  • Page 51 Figure 3–3: Probe adapter types ESI probe adapter APCI probe adapter APCI identification label APCI probe heater ESI probe tip ESI identification label March 21, 2023, 715007811 Ver. 02 Page 51...
  • Page 52 ESCi APCI APCI ASAP ASAP For more information on using each mode, see the Xevo G3 QTof system online Help. The following sections explain how to complete the following tasks: • Installing the probe adapter (Page 53) • Installing the probe assembly (Page 56) •...

  • Page 53: Installing The Probe Adapter

    3.2.6 Installing the probe adapter Figure 3–5: Probe adapter parts Probe adapter cap removed from probe adapter Probe adapter cap tether Locking ring Probe adapter identification label Probe adapter cap release buttons Required materials • Chemical-resistant, powder-free gloves To install the probe adapter: Warning: To avoid personal contamination with biologically hazardous or toxic compounds, wear clean, chemical-resistant, powder-free gloves when performing this procedure.
  • Page 54 Notice: The probe tip is easily damaged. Take care not to bend, crush, or distort the probe tip. Fit the protective cap to the probe tip if you remove the probe adapter from the source. 1. For ESI probe adapters, remove the protective cap, if fitted, from the probe tip. Figure 3–6: ESI probe protective cap ESI probe protective cap 2.
  • Page 55 Figure 3–8: Locating the ESI probe adapter Location hole for probe location dowel Probe adjuster assembly Figure 3–9: Locating the APCI probe adapter Location hole for probe location dowel Probe adjuster assembly 3. Rotate the probe adapter locking ring clockwise to secure the probe adapter in place. March 21, 2023, 715007811 Ver.

  • Page 56: Installing The Probe Assembly

    Figure 3–10: Probe adapter mounted on the source enclosure Probe adapter cap Probe adapter locking ring Probe adjuster assembly Source enclosure High-voltage connector ESI probe adapter cable (ESI probe adapter only) 4. For ESI probe adapters, connect the ESI probe adapter’s cable to the high-voltage connector.
  • Page 57 Recommendation: To connect the probe assembly directly to the fluidics valve, use the 500-mm ESI or APCI probe assembly. Figure 3–11: Probe assembly Capillary Probe adapter PEEK fitting Warning label Identification label showing part number Fitting spring retainer Probe inlet fitting Notes: The high-voltage warning label does not appear on all probe assemblies.
  • Page 58 Warning: To avoid electric shock, do not insert any item into the probe cap aperture when the probe cap is fitted to the instrument. Warning: To avoid harmless, static-like electric shock, ensure that the mass spectrometer is in Standby mode before you touch any of its external surfaces that are marked with this high-voltage warning symbol.
  • Page 59 Figure 3–13: Inserting the probe assembly Probe assembly capillary Probe adapter 3. Screw the probe adapter fitting into the probe adapter, finger-tight only, until you hear a click. Figure 3–14: Probe assembly fitted to the probe adapter Probe adapter fitting Tip: The probe adapter fitting varies in size depending on the probe assembly type.
  • Page 60 the correct probe assembly. For example, the UniSpray probe assembly will not fit the tool-free probe adapter. 4. Tilt the probe adapter cap so that the ball bearing is located in the recess at the bottom of the aperture, and then insert the probe assembly tubing through the aperture. Figure 3–15: Probe adapter cap Probe cap aperture from the underside Probe cap aperture from the top...
  • Page 61 Figure 3–16: Fitting the probe adapter cap Inlet fitting Probe adapter cap Probe adapter cap tether Probe adapter Probe assembly capillary 5. Slide the probe adapter cap along the probe assembly, over the probe adapter inlet fitting. 6. Push the probe adapter cap onto the probe adapter until it clicks. Tips: March 21, 2023, 715007811 Ver.
  • Page 62 • Do not squeeze the probe adapter cap release buttons when fitting the probe adapter cap. • Ensure that the probe adapter cap is correctly seated and that both release buttons engage with the probe adapter, producing a click. • If you cannot fit the probe adapter cap fully, ensure that you are installing the correct probe assembly type.
  • Page 63 Figure 3–18: Inlet fitting holder Probe assembly capillary Probe inlet fitting Inlet fitting holder Warning: To avoid risk of electric shock, connect the ESI probe capillary to the diverter valve or, if connected directly to an LC system, to a grounded liquid outlet.
  • Page 64 Figure 3–19: Connecting the probe inlet fitting Tip: The other plumbing connections are omitted for clarity. WASH - W SAMPLE - A CALIBRANT - C LOCKMASS - B Diverter valve Probe assembly capillary Locking ring b. Screw the probe inlet PEEK fitting into port 2 (the top port) of the diverter valve, finger-tight only, until you hear a click.

  • Page 65: Optimizing The Probe Position

    Vernier probe adjuster (for horizontal adjustment of the probe) 3.2.8 Optimizing the probe position Before you begin using the Xevo G3 QTof for ESI, ESCi, or APCI, you must visually inspect the initial probe position. You can then optimize the probe position using the manual tuning controls...
  • Page 66 Figure 3–21: Probe mounted on the Xevo G3 QTof source Probe assembly adjuster Vernier screw for horizontal adjustment of the probe adapter...
  • Page 67 Settings waters_connect From the System Console, click Summary (waters_connect Hub > System Console > Xevo G3 QTof > Summary > Summary), and then click Operate in the upper, right-hand corner of the window. The API and collision gas flows start.

  • Page 68: Removing The Probe Adapter

    3.2.9 Removing the probe adapter Remove the probe adapter before performing any of the following actions: • Switching between ESI and APCI modes. • Replacing the ESI probe tip or gasket (see Replacing the ESI probe tip and gasket (Page 184)).

  • Page 69: Installing And Removing The Corona Pin (Apci, Asap, And Esci)

    The corona pins can become misshapen in transit, or when the pin is fitted or removed. To avoid this and ensure that the tip of the corona pin is fitted in the optimum operating position, Waters recommends that you use the supplied corona pin alignment tool when you fit the corona pin.
  • Page 70 Required materials • Chemical-resistant, powder-free gloves • Protective eyewear • Corona pin • Corona pin alignment tool To install the corona pin in the source: Warning: To avoid personal contamination with biologically hazardous, toxic, and corrosive materials, wear chemical-resistant, powder-free gloves and protective eyewear when performing this procedure.
  • Page 71 Figure 3–23: Inside the source enclosure Rear shield Corona pin mounting contact blanking plug Sampling cone assembly Front shield Isolation valve 3. Wait six minutes for the isolation valve, the sampling cone handle, and the source shield to cool. Warning: To avoid burn injuries, use caution when working with the isolation valve or the sampling cone handle.
  • Page 72 Figure 3–24: Fitting the corona pin alignment tool Corona pin alignment tool Corona pin alignment point Handle Corona pin mounting contact blanking plug 8. Grasp the corona pin alignment tool handle, and use it to rotate the corona pin alignment tool 90 degrees, moving the handle downward from the horizontal to the vertical position.
  • Page 73 Figure 3–26: Fitting the corona pin Corona pin 10. Bend the corona pin so that the tip is positioned within the depression at the tip of the corona pin alignment tool. Figure 3–27: Fitting the corona pin Corona pin alignment tool Corona pin 11.
  • Page 74 Figure 3–28: Source enclosure Source window Vernier probe adjuster 3.2.10.2 Removing the corona pin from the source Required materials Chemical-resistant, powder-free gloves To remove the corona pin from the source: Warning: To avoid personal contamination with biologically hazardous, toxic, and corrosive materials, wear chemical-resistant, powder-free gloves and protective eyewear when performing this procedure.
  • Page 75 Warning: To avoid burn injuries, take great care while working with the source enclosure open. • Open the source enclosure and wait three minutes for the isolation valve and sampling cone handles to cool before touching them. • Open the source enclosure and wait at least 30 minutes for the ion block to cool before removing it.
  • Page 76 Corona pin mounting contact blanking plug Sampling cone assembly Front shield Isolation valve 7. Close the source enclosure. March 21, 2023, 715007811 Ver. 02 Page 76...

  • Page 77: Configuring The Nanolockspray Source

    4 Configuring the NanoLockSpray source The NanoLockSpray electrospray ion-source enables the optimized co-introduction of sample and lock mass compound directly into the ion source. At low flow rates, this feature provides authenticated, exact-mass measurement in both MS and MS/MS modes. 4.1 Overview of the NanoLockSpray source Warning: To avoid electrical shock, never operate the Nanoflow source without the...
  • Page 78 Shield holding screw Y-position adjuster Thumbscrew Sprayer-platform adjuster assembly Thumbscrew (on left-hand side of sprayer platform) X-position adjuster Sprayer cover Clear sprayer shield (fitted) Z-position adjuster LockSpray sprayer inlet The NanoLockSpray source enclosure holds two NanoFlow sprayers positioned orthogonally with respect to one another.

  • Page 79: Sample Sprayer

    Sample inlet LockSpray inlet Spray indexing permits acquisition of sample and LockSpray data in separate data channels, and the baffle design ensures negligible cross-talk between the two sprays. The LockSpray data are used to calculate a correction factor for the mass scale calibration, which is then applied to the sample data, providing exact mass information.

  • Page 80: Installing The Nanolockspray Source

    4.2 Installing the NanoLockSpray source Required materials Chemical-resistant, powder-free gloves Warning: To avoid personal contamination with biologically hazardous, toxic, and corrosive materials, wear chemical-resistant, powder-free gloves and protective eyewear when performing this procedure. Warning: To avoid static-like electric shock, ensure that the instrument is prepared for working on the source before starting this procedure.
  • Page 81 Figure 4–3: Removing the stage Stop screw Retaining screw 4. Using both hands, fit the NanoLockSpray source enclosure to the two supporting studs on the source adapter housing. 5. Close the source enclosure door. 6. Connect a 1/16-inch PTFE tube between the mass-flow controller output (mounted beneath the stage on the front of the NanoLockSpray source) and your sprayer.

  • Page 82: Selecting And Configuring The Nanolockspray Source

    Figure 4–4: Connecting the high-voltage cable High-voltage cable 10. Close the instrument’s source interface door. 4.3 Selecting and configuring the NanoLockSpray source The Universal NanoFlow sprayer is installed as standard equipment on the NanoLockSpray source. For installation and maintenance details, see the Universal NanoFlow Sprayer Installation and Maintenance Guide (71500110107).

  • Page 83: Deploying The Sprayer Platform Adjuster Assembly

    4.4 Deploying the sprayer platform adjuster assembly 4.4.1 Moving the sprayer platform out of the source To move the sprayer platform out of the source: 1. Confirm that the sprayer cover is installed and in place over the sprayer (see Overview of the NanoLockSpray source (Page 77)).

  • Page 84: Setting Up The Camera

    • If you observe an electrical discharge between the sprayer tip and baffle, move the tip farther from the baffle or reduce the capillary voltage. The capillary voltage must be high enough to maintain a good spray. • Small adjustments to the sprayer position can make large differences to the source sensitivity.

  • Page 85: Optional Glass Capillary Sprayer

    Figure 4–5: Camera Control view of sprayers and sample cone Sample cone Baffle Sprayer tip Sample sprayer 4.7 Optional glass capillary sprayer The glass-capillary sprayer is designed for use with metal-coated borosilicate glass capillaries. The glass capillaries allow extremely low flow rates (less than 100 nL/min). You only use the glass capillaries for one sample, and then must discard them.

  • Page 86: Fitting A Borosilicate Glass Capillary (Nanovial)

    4.7.1 Fitting a borosilicate glass capillary (nanovial) Required materials • Chemical-resistant, powder-free gloves • Needle-nose pliers • Borosilicate glass capillary • Fused silica syringe needle or GELoader tip • Fused silica tubing cutter To fit a borosilicate glass capillary (nanovial): Warning: To avoid lacerations, puncture injuries, and possible contamination with biologically hazardous and toxic materials, do not touch the sharp end of the capillary.
  • Page 87 Figure 4–6: Unscrewing the union from the sprayer assembly Capillary Union 6. Remove the existing capillary from the sprayer. 7. Carefully remove the new borosilicate glass capillary from its case by lifting it vertically while pressing on the foam with two fingers. Figure 4–7: Removing the borosilicate glass capillary Foam Capillary...
  • Page 88 Recommendation: When using a GELoader tip, break the glass capillary in half, scoring it with a fused silica cutter so that the GELoader can reach the capillary’s tip. 9. Thread the knurled nut and approximately 5 mm of conductive elastomer over the blunt end of the capillary.

  • Page 89: Plumbing The Fluidics Sample Delivery System For Nanolockspray Operation

    14. On the MassLynx MS Tune window, ensure that the Capillary parameter on the ES+/- Source tab is set to 0 kV. 15. Carefully push the stage back into the NanoLockSpray source enclosure, using the stop and handle. 4.8 Plumbing the fluidics sample delivery system for NanoLockSpray operation This section explains how to plumb the NanoLockSpray sample delivery system for ACQUITY UPLC M-Class applications.
  • Page 90 Natural Required materials • Chemical-resistant, powder-free gloves • Needle-nose pliers • The Xevo G3 QTof Fluidics Tubing and Fitting Kit Tip: This kit contains components for both the sample and NanoSpray system’s plumbing. March 21, 2023, 715007811 Ver. 02 Page 90...
  • Page 91 To plumb the analyte system: Warning: To avoid personal contamination with biologically hazardous, toxic, and corrosive materials, wear chemical-resistant, powder-free gloves and protective eyewear when performing this procedure. Requirement: You must finger-tighten all PEEK fittings. 1. Open the access door to the fluidics. 2.
  • Page 92 Figure 4–11: PEEK nut, stainless steel ring, and super flangeless ferrule PEEK nut Super flangeless ferrule Stainless steel tubing Stainless steel ring b. Insert the tubing in the pump and tighten the fittings. c. At the sample selector valve, screw the natural-color PEEK female-to-male adapter into port 7.
  • Page 93 Figure 4–13: Connecting the sample selector valve to the waste port WASH - W SAMPLE - A CALIBRANT - C LOCKMASS - B Waste port Figure 4–14: Long, finger-tight fitting Long, finger-tight fitting Tip: The liquid waste system collects waste without requiring a fitted connection. Waste drains through the connector at the base of the instrument and into the waste bottle.
  • Page 94 Figure 4–15: Connecting the sample selector valve to reservoir bottle A WASH - W SAMPLE - A CALIBRANT - C LOCKMASS - B Tubing guide A Reservoir bottle A Tips: Follow these suggestions if you encounter difficulty threading the tubing through the guides: •...
  • Page 95 Figure 4–16: Connecting the sample selector valve to the diverter valve WASH - W SAMPLE - A CALIBRANT - C LOCKMASS - B Diverter valve 8. Using a long, finger-tight fitting, connect 1/16-inch, 350-mm, natural-colored PEEK tubing to port 4 of the diverter valve and thread it securely into the waste port. Tip: This is the same waste port as that used in step 3.
  • Page 96 Important: Ensure that the tubing does not become trapped when you close the access doors to the fluidics system. March 21, 2023, 715007811 Ver. 02 Page 96...

  • Page 97: Unispray Lockspray Source

    5 UniSpray LockSpray source The UniSpray source enabled with LockSpray is available for use on time-of-flight (Tof) mass spectrometers. Figure 5–1: UniSpray LockSpray source – front view Probe PEEK fitting Probe assembly Vertical probe adjuster Horizontal probe adjuster Baffle-motor housing Source enclosure door release handle LockSpray sample port March 21, 2023, 715007811 Ver.

  • Page 98: Installing The Unispray Source

    Figure 5–2: UniSpray LockSpray source – rear view Capillary adjuster Impactor pin and LockSpray baffle Cable storage sockets Probe adjuster overflow spur and probe storage clip See also: Topics about maintaining the source components: • Replacing the UniSpray probe assembly (Page 214) •...

  • Page 99: Installing The Unispray Lockspray Source

    5.1.1 Installing the UniSpray LockSpray source Required materials • Chemical-resistant, powder-free gloves Warning: To avoid personal contamination with biologically hazardous, toxic, and corrosive materials, wear chemical-resistant, powder-free gloves and protective eyewear when performing this procedure. To install the UniSpray source: 1.
  • Page 100 Figure 5–3: Fitting the source Supporting studs Source enclosure door release handle 5. Slide open the instrument's source control panel door. 6. Connect the LockSpray high-voltage cable (green) to the LockSpray high-voltage cable socket (green) on the mass spectrometer. March 21, 2023, 715007811 Ver. 02 Page 100...
  • Page 101 Figure 5–4: UniSpray LockSpray source connections LockSpray high-voltage connector (green) Baffle motor cable (blue) Probe adjuster cable (yellow) Impactor pin high-voltage cable 7. Connect the baffle motor cable (blue) to the baffle motor cable socket (blue) on the mass spectrometer. 8.

  • Page 102: Removing The Unispray Source

    10. Screw the probe assembly PEEK fitting into the instrument’s diverter valve port until it is finger-tight. 11. Screw the LockSpray sample tube into the source’s LockSpray sample inlet port until it is finger-tight. 12. Close the source interface door, ensuring that it locks into place. Result: The source pressure test initiates.
  • Page 103 2. Unscrew the probe assembly's PEEK fitting, connecting it to the instrument's diverter valve, and fit the probe to the storage clip at the end of the source probe adjuster overflow spur. Figure 5–5: Fitting the UniSpray probe to the storage clip on the source probe adjuster Probe assembly PEEK fitting Probe assembly...

  • Page 104: Maintenance Procedures

    6 Maintenance procedures This section provides the maintenance guidelines and procedures necessary to maintain the instrument's performance. Keep to a maintenance schedule and perform maintenance as required and described in this section. 6.1 Maintenance schedule The following table lists periodic maintenance schedules that ensure optimum instrument performance.

  • Page 105: Spare Parts

    216). between the fluidics system components. 6.2 Spare parts To ensure that your system operates as designed, use only Waters Quality Parts. Visit www.waters.com/wqp for information about Waters Quality Parts, including how to order them. 6.3 Safety and handling Bear in mind the following safety considerations when performing maintenance procedures:...

  • Page 106: Preparing The Instrument For Working On The Source

    Warning: To avoid injury when working with hazardous materials, consult the Safety Data Sheets regarding the solvents you use. Additionally, consult the safety representative for your organization regarding its protocols for handling such materials. Warning: To avoid electric shock, observe these precautions: •...

  • Page 107: Using Masslynx Software To Prepare The Instrument For Operations On Or Inside Its Source

    LC flow. Note: If column flow is required, divert the LC flow to waste: a. In the Instrument Console system tree, expand Xevo G3 QTof Detector, Interactive Fluidics. b. Click Control c. Select Waste as the flow state.

  • Page 108: Removing And Refitting The Source Enclosure

    Warning: To avoid burn injuries, take great care while working with the probe and source; these components can be hot. 5. Wait three minutes to allow the desolvation gas flow to cool the probe and source. 6.5 Removing and refitting the source enclosure Before performing certain maintenance procedures, or fitting the optional sources to the instrument, you must remove the source enclosure that is currently fitted to the instrument.

  • Page 109: Fitting The Source Enclosure To The Instrument

    5. Disconnect the probe adjuster and option cables from the instrument’s connectors. Warning: To avoid puncture wounds, handle sharp parts and materials with care. Notice: To avoid damaging the sample inlet, when removing a NanoFlow source enclosure, you must slide the sprayer platform out of the source enclosure before you open the enclosure.

  • Page 110: Operating The Source Isolation Valve

    To fit the source enclosure to the instrument: Warning: To avoid personal contamination with biologically hazardous, toxic, and corrosive materials, wear chemical-resistant, powder-free gloves and protective eyewear when performing this procedure. Warning: To avoid puncture wounds, take great care while working with the source enclosure open if one or both of these conditions apply: •...
  • Page 111 Warning: To avoid personal contamination with biologically hazardous, toxic, and corrosive materials, wear chemical-resistant, powder-free gloves and protective eyewear when performing this procedure. 1. To prepare the instrument for working on the source, stop solvent flow, ensure that the instrument is in Standby mode, and stop desolvation gas flow. For further details, see Preparing the instrument for working on the source (Page 106).

  • Page 112: Opening The Source Isolation Valve

    4. Close the source isolation valve by turning its handle counterclockwise to the vertical position. Figure 6–3: Closing the source isolation valve Isolation valve handle in closed position Notice: To avoid damaging the StepWave assembly, do not switch the instrument into Operate mode when the isolation valve is closed. Notice: To avoid damage, do not open the source isolation valve before fitting the sampling cone assembly to the ion block assembly.

  • Page 113: Removing O-Rings And Seals

    Figure 6–4: Source isolation valve opened Isolation valve handle in open position 2. Close the source enclosure. 6.7 Removing O-rings and seals You must remove O-rings or seals from instrument components when performing certain maintenance procedures. 6.7.1 O-ring removal kit Note: The O-ring removal kit (700005054) is available to order separately.

  • Page 114: Maintaining The Source Shield Assemblies

    To remove an O-ring: Notice: To avoid damaging the component when removing an O-ring or seal from it, ensure that you do not scratch the component with the removal tool. Use the tools as aids to pull the O-ring or seal from its groove. Tip: If you do not plan to reuse the O-ring or seal, you can use the forked end of tool 1 to impale the O-ring or seal to remove it.
  • Page 115 Figure 6–6: Source shield assembly for ESI, ESCi, APCI, and ASAP sources Spring-loaded securing clip Cut-out (for the instrument's source pressure sensor) Rear shield Hook Front shield (for drainage) PEEK handle Figure 6–7: Source shield assembly for UniSpray sources Spring-loaded securing clip Cut-out (for the instrument's source pressure sensor) March 21, 2023, 715007811 Ver.

  • Page 116: Removing The Esi, Esci, Apci, Or Asap Source Shield

    Shield Figure 6–8: Source shield assembly fitted to ESI, ESCi, APCI, and ASAP sources Rear shield Front shield (for drainage, and also takes excess spray impact) Figure 6–9: Source shield assembly fitted to UniSpray sources Shield 6.8.1 Removing the ESI, ESCi, APCI, or ASAP source shield If required, remove the source shield from the instrument to perform any of the following tasks: •...
  • Page 117 • Remove or fit the sampling cone assembly retaining blocks. • Remove the ion block assembly. Required materials • Chemical-resistant, powder-free gloves To remove the source shield: Warning: To avoid personal contamination with biologically hazardous, toxic, and corrosive materials, wear chemical-resistant, powder-free gloves and protective eyewear when performing this procedure.
  • Page 118 Figure 6–10: Removing the source shield Hook PEEK handle Front shield (for drainage) 3. Holding the PEEK handle, unhook and lift away the front shield from the rear shield, ensuring that you do not flick away any residual fluid that might be present. Figure 6–11: Removing the front source shield Hook 4.

  • Page 119: Removing The Unispray Source Shield

    Figure 6–12: Removing the rear source shield Spring-loaded securing clips Pumping block Rear shield Note: To clean the shield components, see Cleaning the source shield components (Page 121). 6.8.2 Removing the UniSpray source shield If required, remove the source shield from the instrument to perform any of the following tasks: •...
  • Page 120 Warning: To avoid personal contamination with biologically hazardous, toxic, and corrosive materials, wear chemical-resistant, powder-free gloves and protective eyewear when performing this procedure. Warning: To avoid burn injuries, take great care while working with the source enclosure open. • Open the source enclosure and wait three minutes for the isolation valve and sampling cone handles to cool before touching them.

  • Page 121: Cleaning The Source Shield Components

    Figure 6–13: Removing the source shield Spring-loaded securing clips Pumping block Shield Note: To clean the source shield, see Cleaning the source shield components (Page 121). 6.8.3 Cleaning the source shield components Note: To remove the source shield components, see Removing the ESI, ESCi, APCI, or ASAP source shield (Page 116) Removing the UniSpray source shield (Page...

  • Page 122: Fitting The Esi, Esci, Apci, Or Asap Source Shield

    Warning: To avoid personal contamination with biologically hazardous, toxic, and corrosive materials, wear chemical-resistant, powder-free gloves and protective eyewear when performing this procedure. Warning: To avoid eye injury, use eye protection when performing this procedure. 1. Immerse the shield components in separate glass vessels containing 1:1 methanol/water. 2.
  • Page 123 Figure 6–14: Fitting the rear source shield Spring-loaded securing clip Cut-out (for the instrument's source pressure sensor) Pumping block Source pressure sensor Corona pin mounting contact 2. Referring to the following figure, position section 2 of the front shield onto section 1 of the rear shield, and then slide section 4 into section 3.

  • Page 124: Fitting The Unispray Source Shield

    3. Slide the front shield to the left and hook it over the rear shield, as shown in the following figure, to secure it. Figure 6–16: Fitting the front source shield Hook Figure 6–17: The source shield fitted 6.8.5 Fitting the UniSpray source shield Fit the UniSpray source shield if any of these conditions apply: •...

  • Page 125: Cleaning The Instrument Case

    Required materials • Chemical-resistant, powder-free gloves To fit the source shield: Fit the shield over the pumping block and then push it against the source enclosure so that the spring-loaded securing clip clicks into position on the pumping block. Note: When you fit the shield, ensure that the cut-out at the top of the shield aligns with the source pressure sensor.

  • Page 126: Emptying The Nitrogen Exhaust Trap Bottle

    6.10 Emptying the nitrogen exhaust trap bottle Inspect the nitrogen exhaust trap bottle in the instrument exhaust line daily and empty it before it is more than approximately 10% full. Figure 6–19: Nitrogen exhaust trap bottle To laboratory exhaust port From instrument pilot valve port Bottle support Nitrogen exhaust trap bottle...
  • Page 127 Table 6–2: Stopping the LC flow Software Action MassLynx In the instrument console, click Stop Flow waters_connect On the System Console tool bar, click Stop Flow 2. Pull the source enclosure release (located at the bottom, right-hand side) outward and swing open the enclosure.

  • Page 128: Cleaning The Source Components

    6.11 Cleaning the source components Clean the sample cone and cone gas nozzle when these conditions apply: • The sample cone and cone gas nozzle are visibly fouled. • LC and sample-related causes for decreased signal intensity are dismissed. Cleaning the sampling cone assembly (Page 128).
  • Page 129 Warning: To avoid puncture wounds, take great care while working with the source enclosure open if one or both of these conditions apply: • An ESI probe is fitted (the probe’s tip is sharp). • A corona pin is fitted (the pin’s tip is sharp). Warning: To avoid burn injuries, take great care while working with the source enclosure open.
  • Page 130 5. Close the source isolation valve (see Closing the source isolation valve (Page 110)). 6. Grasp the cone gas nozzle handle and use it to rotate the sampling cone assembly 90 degrees, moving the handle from the vertical position to the horizontal position. Figure 6–21: Removing the sampling cone assembly Sampling cone assembly, comprising the cone gas nozzle, sampling cone, and O-ring...

  • Page 131: Disassembling The Sampling Cone Assembly

    6.12.2 Disassembling the sampling cone assembly Required materials • Chemical-resistant, powder-free gloves • Combined 2.5-mm hex wrench and cone extraction tool To disassemble the sampling cone assembly: Warning: To avoid personal contamination with biologically hazardous, toxic, and corrosive materials, wear chemical-resistant, powder-free gloves and protective eyewear when performing this procedure.
  • Page 132 3. Insert the collar in the sample cone. Figure 6–25: Inserting the cone extraction tool Insert the collar Notice: To avoid damaging the sampling cone, which is fragile, do not place it on its tip. Always place it on its flanged base. 4.

  • Page 133: Cleaning The Sample Cone And Cone Gas Nozzle

    Figure 6–27: O-ring removed from the sample cone Cone gas nozzle Sample cone O-ring Cone gas nozzle handle Warning: To avoid spreading contamination with biologically hazardous, toxic, and corrosive materials, dispose of all waste materials according to local environmental regulations. 6.
  • Page 134 • Wash bottle containing HPLC-grade (or better) 1:1 methanol/water • Large beaker To clean the sample cone and cone gas nozzle: Warning: To avoid personal contamination with biologically hazardous, toxic, and corrosive materials, wear chemical-resistant, powder-free gloves and protective eyewear when performing this procedure.

  • Page 135: Assembling The Sampling Cone Assembly

    Warning: To avoid spreading contamination with biologically hazardous, toxic, and corrosive materials, dispose of all waste materials according to local environmental regulations. 6. Inspect each component for persisting contamination. Requirement: If contamination is present, clean the component again. If contamination is still present, dispose of the component, according to local environmental regulations, and obtain a new one before reassembling the sampling cone assembly.

  • Page 136: Fitting The Sampling Cone Assembly To The Source

    Note: The PEEK handle is removable on earlier models of the cone gas nozzle assembly. If you detached the handle from the cone gas nozzle for cleaning, replace the handle and tighten it. 2. Fit the O-ring (a new one, if you disposed of the old O-ring) into the groove created between the sample cone and the cone gas nozzle.

  • Page 137: Cleaning The Ion Block Assembly

    Figure 6–29: Fitting the sampling cone assembly Sampling cone assembly Source isolation valve Ion block assembly 4. Grasp the cone gas nozzle handle and use it to rotate the sampling cone assembly 90 degrees, moving the handle downward from the horizontal to the vertical position. Figure 6–30: Fitting the sampling cone assembly 5.

  • Page 138: Removing The Ion Block Assembly From The Source Assembly

    6.13.1 Removing the ion block assembly from the source assembly Required materials • Chemical-resistant, powder-free gloves • Protective eyewear • Combined 2.5-mm hex wrench and cone extraction tool To remove the ion block assembly: Warning: To avoid personal contamination with biologically hazardous, toxic, and corrosive materials, wear chemical-resistant, powder-free gloves and protective eyewear when performing this procedure.
  • Page 139 Figure 6–31: Source enclosure door open Rear shield Corona pin mounting contact blanking plug Sampling cone assembly Front shield Isolation valve 4. Remove the source enclosure, and then wait 30 minutes for the source to cool (see Removing and refitting the source enclosure (Page 108)).

  • Page 140: Disassembling The Source Ion Block Assembly

    Figure 6–32: Ion block assembly securing screws Ion block assembly securing screws 8. Remove the ion block assembly from the PEEK ion block support. Figure 6–33: Removing the ion block assembly PEEK ion block support Ion block assembly 6.13.2 Disassembling the source ion block assembly Required materials •...
  • Page 141 To disassemble the ion block assembly: Warning: To avoid personal contamination with biologically hazardous, toxic, and corrosive materials, wear chemical-resistant, powder-free gloves and protective eyewear when performing this procedure. 1. Ensure that the source isolation valve is closed. Figure 6–34: Source ion block assembly Source isolation valve handle in closed position Sampling cone assembly retaining blocks Cone gas nozzle handle...
  • Page 142 Figure 6–35: Loosening the ion block cover plate captive screws Ion block cover plate securing screws Ion block cover plate 3. Remove the ion block cover plate. 4. Grasp the cone gas nozzle handle and use it to rotate the sampling cone assembly 90 degrees, moving the handle from the vertical position to the horizontal position.
  • Page 143 7. Use the O-ring removal kit to carefully remove the isolation valve O-ring (see Removing O-rings and seals (Page 113)). Warning: To avoid spreading contamination with biologically hazardous, toxic, and corrosive materials, dispose of all waste materials according to local environmental regulations.
  • Page 144 Figure 6–38: Removing the PEEK terminal block and ceramic heater mounting block Ceramic heater mounting block PEEK terminal block 11. Use the O-ring removal kit to carefully remove the cover seal from the ion block (see also Removing O-rings and seals (Page 113)).
  • Page 145 Warning: To avoid spreading contamination with biologically hazardous, toxic, and corrosive materials, dispose of all waste materials according to local environmental regulations. 13. If the cover seal or cone gas O-ring shows signs of deterioration or damage, dispose of it in accordance with local environmental regulations.

  • Page 146: Cleaning The Ion Block Components

    Figure 6–41: Removing the sampling cone assembly retaining block screws and wave springs Wave springs Sampling cone assembly retaining block screws 15. Remove the sampling cone assembly retaining blocks from the ion block. Figure 6–42: Removing the sampling cone assembly retaining blocks Sampling cone assembly retaining blocks 6.13.3 Cleaning the ion block components Required materials...
  • Page 147 • Appropriately sized glass vessels in which to completely immerse components when cleaning. Use only glassware not previously cleaned with surfactants. • HPLC-grade (or better) methanol • HPLC-grade (or better) water • Formic acid • Ultrasonic bath • Oil-free nitrogen gas for drying (air-drying optional) •...

  • Page 148: Assembling The Source Ion Block Assembly

    4. Carefully remove the components from the vessels and blow-dry them using inert, oil-free gas. 5. Inspect each component for persisting contamination. Requirement: If contamination is present, do as follows: a. Use the wash bottle containing 1:1 methanol/water to rinse the component over the large beaker.

  • Page 149: Fitting The Ion Block Assembly To The Source Assembly

    4. Use the combined 2.5-mm hex wrench and cone extraction tool to tighten the captive PEEK terminal block securing screw. 5. Ensure that the grooves for the cover seal, cone gas O-ring, and isolation valve O-ring are free from dirt and debris. Tip: If contamination is present, use 1:1 methanol/water, applied to a lint-free cloth, to carefully clean the grooves.

  • Page 150: Cleaning The Lockspray Baffle

    Notice: To avoid recontaminating the components, wear clean, chemical-resistant, powder-free gloves. 1. Fit the ion block assembly to the PEEK ion block support. 2. Use the combined 2.5-mm hex wrench and cone extraction tool to fit, and then slowly tighten, the four ion block assembly securing screws sequentially and in small increments. 3.
  • Page 151 1. To prepare the instrument for working on the source, stop solvent flow, ensure that the instrument is in Standby mode, and stop desolvation gas flow. For further details, see Preparing the instrument for working on the source (Page 106). 2.

  • Page 152: Cleaning The Baffle

    Reference sprayer 5. Slide the baffle off the baffle post. 6.14.2 Cleaning the baffle Required materials • Chemical-resistant, powder-free gloves • Protective eyewear • Appropriately sized glass vessels in which to completely immerse components when cleaning. Use only glassware not previously cleaned with surfactants. •...

  • Page 153: Fitting The Baffle

    a. Rinse the baffle by immersing it in a separate glass vessel containing water, and then place the vessel in the ultrasonic bath for 20 minutes. b. Remove any residual water from the baffle by immersing it in a separate glass vessel containing methanol, and then place the vessel in the ultrasonic bath for 10 minutes.
  • Page 154 • The baffle has been designed to fit in a specific way and cannot be fitted differently. • For illustrative purposes, the reference probe and the reference sprayer have been removed. Figure 6–44: Fitting the baffle Baffle post Baffle Baffle screw slot 3.

  • Page 155: Replacing The Probe Assembly

    Baffle 4. Fit the source enclosure. For further details, see Fitting the source enclosure to the instrument (Page 109). 5. Close the source door. 6.15 Replacing the probe assembly Replace probe assembly if it becomes irreversibly blocked, or if it becomes contaminated or damaged.
  • Page 156 2. If the probe assembly is connected to the fluidics, open the access door to the fluidics system, and disconnect the PEEK fitting from the diverter valve. 3. Squeeze the probe adapter cap release buttons together and lift the probe cap off the probe adapter, sliding it over the probe assembly.

  • Page 157: Removing And Fitting The Sampling Cone Assembly Retaining Blocks

    Figure 6–47: PEEK fitting PEEK fitting 5. Remove the probe assembly. 6. Dispose of the probe assembly in accordance with local environmental regulations. 7. To install a new probe assembly, see Installing the probe assembly (Page 56). Important: If you change between ESI, ESCi, and APCI modes, ensure that you fit the correct probe adapter.
  • Page 158 To remove the sampling cone assembly retaining blocks: Warning: To avoid personal contamination with biologically hazardous, toxic, and corrosive materials, wear chemical-resistant, powder-free gloves and protective eyewear when performing this procedure. Warning: To avoid eye injury, use eye protection when performing this procedure. Warning: To avoid harmless, static-like electric shock, before you touch any external surfaces marked with the high-voltage warning symbol, ensure that the mass...
  • Page 159 Figure 6–48: Source enclosure door open Sampling cone assembly retaining blocks Rear shield Sampling cone assembly Front shield Isolation valve 3. Remove the front source shield (see Removing the ESI, ESCi, APCI, or ASAP source shield (Page 116)). 4. Close the source isolation valve (see Closing the source isolation valve (Page 110)).
  • Page 160 Figure 6–49: The sampling cone assembly retaining block screws Sampling cone assembly retaining block screws Sampling cone assembly retaining blocks Figure 6–50: Removing the sampling cone assembly retaining block screws and wave spring washers Wave springs Sampling cone assembly retaining block screws 7.

  • Page 161: Fitting The Sampling Cone Assembly Retaining Blocks

    Figure 6–51: Removing the sampling cone assembly retaining blocks Sampling cone assembly retaining blocks To clean the sampling cone assembly retaining blocks, see Cleaning the ion block components (Page 146). 6.16.2 Fitting the sampling cone assembly retaining blocks Fit the sampling cone assembly retaining blocks if either of these conditions applies: •...
  • Page 162 Figure 6–52: Fitting the sampling cone assembly retaining blocks Sampling cone assembly retaining blocks Slots Guiding rods 2. To secure the retaining blocks, fit a wave spring onto each retaining block screw and then use the combined 2.5-mm hex wrench and cone extraction tool to tighten them to the ion block.

  • Page 163: Replacing The Ion Block Source Heater Assembly

    6.17 Replacing the ion block source heater assembly Replace the ion block source heater if it fails to heat the ion block when the instrument is pumped-down (evacuated). Required materials • Chemical-resistant, powder-free gloves • Needle-nose pliers • Combined 2.5-mm hex wrench and cone extraction tool •...
  • Page 164 3. Use the combined 2.5-mm hex wrench and cone extraction tool to loosen the two captive screws that secure the ion block cover plate. Figure 6–55: Loosening the ion block cover plate captive screws Ion block cover plate securing screws Ion block cover plate 4.
  • Page 165 6. Carefully remove the PEEK terminal block and ceramic heater mounting block, complete with heater cartridge assembly, from the ion block. Tip: You can invert the ion block assembly to facilitate this process. Figure 6–57: Removing the PEEK terminal block and ceramic heater mounting block Heater wire securing screws PEEK terminal block Ceramic heater mounting block...

  • Page 166: Cleaning Or Replacing The Corona Pin

    Heater cartridge assembly Warning: To avoid spreading contamination with biologically hazardous, toxic, and corrosive materials, dispose of all waste materials according to local environmental regulations. 10. Dispose of the heater cartridge assembly in accordance with local environmental regulations. Notice: To avoid damaging the heater cartridge assembly wires, do not bend or twist them when removing the assembly and ceramic heater mounting block from the ion block.

  • Page 167: Cleaning The Stepwave Ion Guide Assembly

    • Lapping film • Corona pin To clean or replace the corona pin: Warning: To avoid personal contamination with biologically hazardous, toxic, and corrosive materials, wear chemical-resistant, powder-free gloves and protective eyewear when performing this procedure. Warning: To avoid eye injury, use eye protection when performing this procedure. Warning: To avoid burn injuries, take great care while working with the source enclosure open.

  • Page 168: Handling The Stepwave Ion Guide Assembly

    6.19.1 Handling the StepWave ion guide assembly Notice: To avoid damaging the StepWave ion guide assembly, handle it and its components carefully throughout the cleaning procedure. In particular, to avoid damaging the wiring on assemblies fitted with an externally wired printed circuit board (PCB), do not touch the wiring.
  • Page 169 Figure 6–59: PEEK ion block support Housing Securing screws StepWave assembly Securing screws PEEK ion block support 4. Remove the PEEK ion block support from the adapter housing. 5. Use the O-ring removal kit to carefully remove all the O-rings from the PEEK ion block support (see Removing O-rings and seals (Page 113)).

  • Page 170: Removing The Stepwave Assembly From The Source Assembly

    6.19.3 Removing the StepWave assembly from the source assembly Required materials • Chemical-resistant, powder-free gloves • Protective eyewear • Seal-breaker and locator tool • StepWave assembly removal and insertion tool Recommendation: When not in use, store the seal breaker and locator tool on the end of the StepWave assembly removal and insertion tool.
  • Page 171 Figure 6–60: Seal breaker and locator tool Handle March 21, 2023, 715007811 Ver. 02 Page 171...
  • Page 172 Figure 6–61: Seal breaker and locator tool positioned on the adapter housing Adapter housing Ion guide cap Seal breaker and locator tool 2. Push firmly on the seal breaker and locator tool’s handle, to lever the StepWave assembly slightly out of the adapter housing. Rationale: Moving the assembly in this manner releases it from a seal located inside the instrument.
  • Page 173 Figure 6–62: StepWave assembly removal and insertion tool Ion block support screw holes (2) Brown PEEK ion guide cap Slot Cutout Pins Notice: To avoid damage when removing the StepWave ion guide assembly from the adapter housing, handle only the brown PEEK ion guide cap. 4.

  • Page 174: Disassembling The Stepwave Ion Guide Assembly

    Rationale: Fitting and closing the source enclosure prevents debris entering the instrument while you are working on the StepWave ion guide assembly. 6.19.4 Disassembling the StepWave ion guide assembly Warning: To avoid personal contamination with biologically hazardous, toxic, and corrosive materials, wear chemical-resistant, powder-free gloves and protective eyewear when performing this procedure.
  • Page 175 Figure 6–64: StepWave ion guide assembly separated Second ion guide assembly First ion guide assembly 3. Remove the brown PEEK gasket from the second ion guide assembly. Figure 6–65: StepWave second ion guide assembly Second ion guide assembly Brown PEEK gasket 4.

  • Page 176: Cleaning The Stepwave Ion Guide Assembly

    Figure 6–66: StepWave second ion guide assembly Differential pumping aperture O-ring Warning: To avoid spreading contamination with biologically hazardous, toxic, and corrosive materials, dispose of all waste materials according to local environmental regulations. 5. If the O-ring shows signs of deterioration or damage, dispose of it in accordance with local environmental regulations.
  • Page 177 • Two lengths of PEEK, PTFE, or stainless steel tubing, appropriately sized for suspending the first ion guide and second ion guide assemblies in the glass vessels when cleaning. • HPLC-grade deionized water • Waters MS Cleaning Solution (186006846) • Waste container • HPLC-grade isopropyl alcohol •...
  • Page 178 First ion guide PCB assembly Hook 3. Add Waters MS Cleaning Solution to the glass vessel until the first ion guide PCB assembly is immersed completely. 4. Repeat step 1 through step 3 for the second ion guide PCB assembly, placing the hook through one of the support rod holes.

  • Page 179: Assembling The Stepwave Ion Guide Assembly

    Tip: You can reuse the cleaning solution for one subsequent cleaning. 7. Fill the vessel with deionized water, to rinse the first ion guide PCB assembly, and then discard the water. 8. Refill the vessel with deionized water to rinse the first ion guide PCB assembly a second time, and then discard the water.
  • Page 180 Figure 6–69: Fitting the new O-ring to the differential pumping aperture Differential pumping aperture O-ring 2. Fit the brown PEEK gasket to the second ion guide assembly. Important: Ensure that the gasket is oriented correctly. Figure 6–70: Fitting the brown PEEK gasket Second ion guide assembly Brown PEEK gasket 3.

  • Page 181: Fitting The Stepwave Assembly To The Source Assembly

    4. Use the combined 2.5-mm hex wrench and cone extraction tool to fit and tighten the two screws securing the first ion guide assembly to the second ion guide assembly. 6.19.7 Fitting the StepWave assembly to the source assembly Required materials •...
  • Page 182 Figure 6–71: Sliding the StepWave assembly into the StepWave removal and insertion tool StepWave assembly Pins (2) StepWave assembly removal and insertion tool Cutout 5. With the StepWave removal and insertion tool’s cutout uppermost, insert the StepWave removal and insertion tool’s pins into the ion block support screw holes above and below the aperture in the pumping block assembly.

  • Page 183: Fitting The Ion Block Support To The Source

    Figure 6–72: Fitting the seal breaker and locator tool StepWave assembly Adapter housing Inverted seal breaker and locator tool 9. Push firmly on the seal breaker and locator tool until the tool’s face contacts the adapter housing. Rationale: This fully locates the StepWave assembly in the adapter housing. 10.

  • Page 184: Replacing The Esi Probe Tip And Gasket

    To fit the PEEK ion block support to the source: Warning: To avoid personal contamination with biologically hazardous, toxic, and corrosive materials, wear chemical-resistant, powder-free gloves and protective eyewear when performing this procedure. 1. Ensure that the grooves for the PEEK ion block support O-rings are free from dirt and debris.
  • Page 185 Warning: To avoid eye injury, use eye protection when performing this procedure. Warning: To avoid burn injuries, take great care while performing this procedure. Warning: To avoid spreading contamination with biologically hazardous, toxic, and corrosive materials, dispose of all waste materials according to local environmental regulations. 1.

  • Page 186: Fitting The Esi Probe Tip And Gasket

    6.20.2 Fitting the ESI probe tip and gasket Required materials • Chemical-resistant, powder-free gloves • 10-mm open-end wrench • 7-mm open-end wrench • New metal gasket To fit the ESI probe tip and gasket: Warning: To avoid personal contamination with biologically hazardous materials, wear clean, chemical-resistant, powder-free gloves when performing this procedure.

  • Page 187: Cleaning The Apci Probe Tip

    3. Screw the probe tip onto the ESI probe adapter. 4. Tighten the probe tip using the 7-mm wrench and the 10-mm wrench, as shown in the following figure: Figure 6–75: Tightening the probe tip ESI probe adapter 7-mm wrench 10-mm wrench ESI probe tip Important:...

  • Page 188: Replacing The Apci Probe Heater

    5. Click Operate 6. Wait 10 minutes. Rationale: The high APCI probe heater temperature removes any chemical contamination from the probe tip. 7. Click Standby 6.22 Replacing the APCI probe heater Replace the APCI probe heater if it fails to heat the probe. 6.22.1 Removing the APCI probe heater Required materials Chemical-resistant, powder-free gloves...
  • Page 189 Figure 6–76: Probe heater Probe heater Notice: To avoid damaging the probe heater's electrical connections, do not twist the heater when removing it from or refitting it to the probe adapter. Warning: To avoid burn injuries, take great care while performing this procedure.

  • Page 190: Fitting The New Apci Probe Heater

    Warning: To avoid spreading contamination with biologically hazardous, toxic, and corrosive materials, dispose of all waste materials according to local environmental regulations. 3. Dispose of the probe heater in accordance with local environmental regulations. 6.22.2 Fitting the new APCI probe heater Required materials •...

  • Page 191: Replacing The Source Assembly Seals

    Figure 6–78: Fitting the probe heater Capillary sleeve Probe heater connections Notice: To avoid damaging the probe heater's electrical connections, do not twist the heater when removing it from or refitting it to the probe adapter. 2. Fit the probe adapter to the instrument (see Installing the probe adapter (Page 53)).

  • Page 192: Removing The Probe Adjuster Assembly Probe And Source Enclosure Seals

    Warning: To avoid spreading contamination, dispose of the O-ring or seal according to local environmental regulations. O-rings and seals can be contaminated with biohazardous or toxic materials. Warning: To avoid excessive leakage of biologically hazardous or toxic solvent vapor into the laboratory atmosphere, the seals listed below must be renewed, at intervals of no greater than one year, exactly as described in this section.
  • Page 193 See also: Removing O-rings and seals (Page 113). Figure 6–79: Probe adjuster assembly seals Probe adjuster nebulizer gas seal Probe adjuster assembly probe seal 3. Use the O-ring removal kit to carefully remove the following seals from the source enclosure: •...

  • Page 194: Fitting The New Source Enclosure And Probe Adjuster Assembly Probe Seals

    Nebulizer gas seal Warning: To avoid spreading contamination with biologically hazardous, toxic, and corrosive materials, dispose of all waste materials according to local environmental regulations. 4. Dispose of all the seals in accordance with local environmental regulations. 6.23.2 Fitting the new source enclosure and probe adjuster assembly probe seals Required materials •...

  • Page 195: Replacing The Mass Spectrometer's Air Filters

    Figure 6–81: Fitting the seal into the groove Seal Groove 4. Fit the following new seals to the probe adjuster assembly: • Probe seal • Nebulizer gas seal 5. Fit the source enclosure to the instrument (see Fitting the source enclosure to the instrument (Page 109)).
  • Page 196 Figure 6–82: Xevo G3 QTof air filter Air filter panel (left-hand side) Screws Air filter panel (right-hand side) Screws To replace the air filters: For each filter, follow this sequence of actions: 1. Use the T20 TORX driver to remove the screws securing the air filter panel to the instrument.

  • Page 197: Replacing The Air Filters Behind The Front Filter Cover

    7. Use the T20 TORX driver to fit and tighten the screws that secure the air filter panel to the instrument. 6.24.2 Replacing the air filters behind the front filter cover You must replace the two air filters located behind the front filter cover annually. These filters are retained by filter support brackets, which you must remove to access the filters.

  • Page 198: Replacing The Lockspray Ii Reference Probe

    6.25 Replacing the LockSpray II reference probe The LockSpray II reference probe differs from the original LockSpray reference probe in that it comes as one complete unit, pre-built to length. The capillary end connects to the reference sprayer assembly within the LockSpray II source housing. Important: There is no LockSpray II retrofit option for the LockSpray source, but the front-end housings are interchangeable on the instrument.

  • Page 199: Removing The Existing Reference Probe

    Reference probe If your system is supplied with, or your application requires the use of a microfilter, fit it to the PEEK inlet of the reference probe. The microfilter is provided with the manufacturer’s fitting instructions in the spares kit for the reference probe assembly. Warning: To avoid risk of electric shock, switch the instrument to Standby before working on the reference sprayer connection.
  • Page 200 To remove the existing one-piece reference probe: 1. To prepare the instrument for working on the source, stop solvent flow, ensure that the instrument is in Standby mode, and stop desolvation gas flow. For further details, see Preparing the instrument for working on the source (Page 106).
  • Page 201 Warning: To avoid burn injuries, take great care while working with the probe and source; these components can be hot. Figure 6–88: Removal of the reference probe inlet connector from within the source housing Source housing Reference probe inlet connector 5.
  • Page 202 Reference sprayer assembly 6. Unscrew the finger-tight fitting counterclockwise to remove the capillary end of the reference probe from the reference sprayer assembly. Figure 6–90: Unscrewing the finger-tight fitting from the reference sprayer assembly Reference sprayer assembly Finger-tight fitting 7. Remove the reference sprayer probe capillary from the reference sprayer assembly. Figure 6–91: Removal of the reference sprayer capillary from the sprayer assembly Reference sprayer assembly Reference sprayer probe capillary...

  • Page 203: Installing The New Reference Probe

    Warning: To avoid spreading contamination with biologically hazardous, toxic, and corrosive materials, dispose of all waste materials according to local environmental regulations. 8. Dispose of the used reference sprayer probe in accordance with local environmental regulations. 6.27 Installing the new reference probe Required materials •...
  • Page 204 Figure 6–93: Securing the reference sprayer capillary Reference sprayer assembly Finger-tight fitting 3. Using the 4-mm open-end wrench, adjust the reference sprayer to ensure the correct capillary protrusion as required. 4. Insert the reference sprayer assembly into its support assembly with the reference sprayer tip pointing upward.
  • Page 205 Locating notch on sprayer assembly Reference sprayer assembly stem 5. Rotate the reference sprayer assembly 90 degrees counterclockwise to lock it in place. Figure 6–95: Locking the reference sprayer assembly 6. Rotate the reference probe inlet connector until its groove aligns with the source housing notch.
  • Page 206 Groove in reference probe PEEK inlet connector 8. Push the reference probe inlet connector upwards until the bayonet groove is above the notch. 9. Rotate the reference probe inlet connector until the bayonet groove aligns with the notch on the source housing. Figure 6–97: Alignment of notch and groove Source housing notch Bayonet groove...

  • Page 207: Replacing The Nanolockspray Reference Probe Tapertip Emitter Or Capillary

    6.28 Replacing the NanoLockSpray reference probe TaperTip emitter or capillary Replace the NanoLockSpray reference-probe TaperTip emitter or capillary if either is irreversibly blocked, contaminated, or damaged. 6.28.1 Removing the NanoLockSpray reference probe Required materials: • Chemical-resistant, powder-free gloves • Combined 2.5-mm hex wrench and cone extraction tool •...
  • Page 208 Figure 6–99: Removing the NanoLockSpray reference probe's fixing screws Fixing screw NanoLockSpray reference probe Warning: To avoid puncture wounds, handle the probe with care. The reference-probe tip is an exposed, fused-silica TaperTip emitter that is sharp and fragile. 7. Remove the NanoLockSpray reference probe from the probe adjuster assembly. 8.

  • Page 209: Installing The New Tapertip Emitter And Capillary

    Capillary Union TaperTip emitter TaperTip-emitter outlet Warning: To avoid eye injury from fused silica lines, wear protective eyewear. 9. Unscrew the capillary PEEK coupler, and remove the capillary from the union. 10. Where appropriate, remove the protective PEEK sleeve from the capillary for reuse. Warning: To avoid spreading contamination with biologically hazardous, toxic, and corrosive materials, dispose of all waste materials according to local environmental...
  • Page 210 • Loosen the set screw, using the 1.5-mm hex wrench. • Reposition the union so the surface is level with the bottom of the body holder. • Tighten the set screw, using the 1.5-mm hex wrench. Figure 6–101: NanoLockSpray reference probe Set screw Union Body holder...

  • Page 211: Maintaining The Unispray Impactor Pin

    Notice: To avoid crushing the coupler on the TaperTip emitter, do not overtighten it; overtightening can cause blockages. 9. Finger-tighten the coupler to hold the TaperTip emitter securely, without crushing. Notice: To avoid breaking the fragile TaperTip emitter, take care when inserting the reference probe into the source enclosure.

  • Page 212: Removing And Installing The Unispray Impactor Pin

    6. Close the source enclosure. 7. Align and optimize the source. For details about aligning and optimizing the source, see the Waters Unispray Source Optimization Quick Reference Card (715005142). You can find this document on http://www.waters.com/ by clicking Support >...

  • Page 213: Cleaning Or Replacing The Unispray Impactor Pin

    To prevent injury, always wear eye protection and gloves when handling strong acids or bases. Recommendation: Waters recommends that you clean the impactor pin if it is contaminated. To clean the impactor pin: 1. Remove the impactor pin from the UniSpray source (see...

  • Page 214: Replacing The Unispray Probe Assembly

    6.30 Replacing the UniSpray probe assembly Replace the probe assembly on the UniSpray source if it becomes irreversibly blocked, or if it becomes contaminated or damaged. 6.30.1 Removing the UniSpray probe assembly Required materials • Chemical-resistant, powder-free gloves Warning: To avoid personal contamination with biologically hazardous, toxic, and corrosive materials, wear chemical-resistant, powder-free gloves and protective eyewear when performing this procedure.

  • Page 215: Installing The Unispray Probe Assembly

    Warning: To avoid lacerations, puncture injuries, and possible contamination with biologically hazardous and toxic materials, do not touch the sharp end of the capillary. 4. Dispose of the probe and fittings in accordance with local environmental regulations. 5. Install a replacement UniSpray probe assembly (see Installing the UniSpray probe assembly (Page 215)).

  • Page 216: Replacing The Fluidics Tubing

    Figure 6–104: Inserting the UniSpray probe assembly into the source Notice: To avoid damaging the capillary on instruments where the source is situated above eye level, remove the source from the device and move it to a lower position before inserting the probe assembly into the probe. Note: Ensure that the new probe is seated correctly, and examine the white label wrap near the PEEK fitting for leaks.

  • Page 217: Replacing The Fluidics Tubing (Standard Configuration)

    • LockSpray standard configuration (see Replacing the fluidics tubing (standard configuration) (Page 217)) • NanoLockSpray configuration (see Plumbing the fluidics sample delivery system for NanoLockSpray operation (Page 89)) 6.32 Replacing the fluidics tubing (standard configuration) 6.32.1 Fluidics system physical layout The flow sensor and grounded union are optional fittings if you fit the LockSpray source.
  • Page 218 Waste port Sample pump Access door LockSpray selector valve Optional flow sensor Sample selector valve Grounded union Diverter valve 500-mL lock mass bottle (B) 30-mL calibrant bottle (C) 30-mL sample bottle (A) 500-mL wash bottle Tubing guides Tubing guides The fluidics system consists of these components: •...

  • Page 219: Removing The Fluidics Tubing

    Recommendation: Use reservoir A for the sample solution, reservoir C for the calibrant solution, and reservoir B for the LockSpray solution. The waste exits through the internal system and drains via a tube to a bottle stored under the instrument bench. Note: During normal operation, keep the instrument access doors closed.
  • Page 220 Figure 6–106: Tubing schematic for the LockSpray system: (Optional) From external reference bottle (Optional) Flow sensor From wash bottle To reference probe (Optional) Grounded union LockSpray selector valve From pump Waste port Tubing guides Table 6–5: Tubing dimensions (LockSpray system): Port number Connection ID (inch)
  • Page 221 Required materials • Chemical-resistant, powder-free gloves • The Xevo G3 QTof Fluidics Tubing and Fitting Kit Tip: This kit contains components for both the sample and LockSpray system plumbing. • For the LockSpray reference probe connection: • 200-mm of 0.005-inch ID red PEEK •...
  • Page 222 Figure 6–107: Connecting the LockSpray pump to the selector valve WASH - W SAMPLE - A CALIBRANT - C LOCKMASS - B LockSpray selector valve LockSpray pump Figure 6–108: PEEK nut, Super Flangeless ferrule, and stainless steel (SS) ring PEEK nut Stainless steel ring Super Flangeless ferrule Figure 6–109: Long, finger-tight fitting...
  • Page 223 Figure 6–110: Connecting the LockSpray selector valve and reservoir bottle A WASH - W SAMPLE - A CALIBRANT - C LOCKMASS - B Reservoir bottle A Requirement: As the tubing emerges from the tubing guide, thread a long, finger-tight fitting over it. Push the tubing through the left-hand hole, to the bottom of the reservoir bottle, and tighten the fitting.
  • Page 224 6. Using a long, finger-tight fitting, connect orange, 1/16-inch, 825-mm PEEK tubing from port 6 of the LockSpray selector valve to the wash bottle. Requirement: Push the tubing to the bottom of the wash solution and secure the tubing to prevent it from floating to the surface during use. 7.
  • Page 225 Figure 6–112: Connecting the LockSpray selector valve to the left-hand side of the flow sensor WASH - W SAMPLE - A CALIBRANT - C LOCKMASS - B Flow sensor Figure 6–113: Long, finger-tight PEEK nut and 1/32-inch PEEK ferrule: Figure 6–114: 1/32-inch, 6-40 Valco compression fitting assembly 11.
  • Page 226 Figure 6–115: 1/32-inch, 6-40 Valco compression fitting assembly WASH - W SAMPLE - A CALIBRANT - C LOCKMASS - B Grounded union Figure 6–116: Short, finger-tight nut and 1/32-inch ferrule Warning: To avoid static-like electric shock, do not use stainless steel tubing to connect the grounded union to the reference probe.

  • Page 227: Plumbing The Fluidics Sample Delivery System

    Ferrule • For the NanoLockSpray source, see Installing the new TaperTip emitter and capillary (Page 209). 13. Close the access doors to the fluidics system. Important: Ensure that the tubing does not become trapped when you close the access door to the fluidics system. 6.32.4 Plumbing the fluidics sample delivery system This section explains how to plumb the sample delivery system for standard flow applications.
  • Page 228 0.040 1/16 Natural Required materials • Chemical-resistant, powder-free gloves • The Xevo G3 QTof Fluidics Tubing and Fitting Kit Tip: This kit contains components for both the sample and LockSpray system’s plumbing. To plumb the analyte system: Warning: To avoid personal contamination with biologically hazardous, toxic, and corrosive materials, wear chemical-resistant, powder-free gloves and protective eyewear when performing this procedure.
  • Page 229 Figure 6–119: Connecting the sample pump to the sample selector valve WASH - W SAMPLE - A CALIBRANT - C LOCKMASS - B Sample selector valve Sample pump a. Slide the PEEK nut, super flangeless ferrule, and stainless steel ring over the pump end of the steel tubing.
  • Page 230 Figure 6–121: Flangeless nut and ferrule Flangeless nut Flangeless ferrule PEEK female-to-male adapter d. Slide the transparent, 1/16-inch, flangeless nut and blue, 1/16-inch, flangeless ferrule over the tubing. Rationale: These components provide fail-safe pressure relief in the event of a blockage.
  • Page 231 Figure 6–123: Long, finger-tight fitting Long, finger-tight fitting Tip: The liquid waste system collects waste without requiring a fitted connection. Waste drains through the connector at the base of the instrument and into the waste bottle (see Connecting liquid waste lines (Page 273)).
  • Page 232 Tips: Follow these suggestions if you encounter difficulty threading the tubing through the guides: • Thread the tubes upward from the bottom hole. • Using needle-nose pliers, make a 20° bend 10 mm from the end of the tubing. Then rotate the tubing as you thread it through the guide.

  • Page 233: Plumbing The Fluidics Sample Delivery System For Nanolockspray Operation

    Figure 6–126: Connecting the diverter valve to the waste port WASH - W SAMPLE - A CALIBRANT - C LOCKMASS - B Waste port Tip: This is the same waste port as that used in step 3. 9. Connect port 2 of the diverter valve to the source probe. See Installing the probe assembly (Page 56).
  • Page 234 Figure 6–127: NanoLockSpray sample fluidics delivery tubing schematic LockSpray reservoir NanoFlow sensor Wash Pump line From wash Sample selector valve To reference sprayer Diverter valve Pump line Tube guide Tube guide Note: All tubing is PEEK, except for that comprising the connection between the pump and sample selector valve, which is stainless steel.
  • Page 235 1/16 Natural Required materials • Chemical-resistant, powder-free gloves • Needle-nose pliers • The Xevo G3 QTof Fluidics Tubing and Fitting Kit Tip: This kit contains components for both the sample and NanoSpray system’s plumbing. To plumb the analyte system: Warning:...
  • Page 236 Figure 6–128: Connecting the sample pump to the sample selector valve WASH - W SAMPLE - A CALIBRANT - C LOCKMASS - B Sample selector valve Sample pump a. Slide the PEEK nut, stainless steel ring, and super flangeless ferrule over the pump end of the steel tubing.
  • Page 237 Figure 6–130: Fitting the PEEK adapter Flangeless nut Flangeless ferrule PEEK female-to-male adapter d. Slide the transparent, 1/16-inch, flangeless nut and blue, 1/16-inch, flangeless ferrule over the tubing. Rationale: These components provide fail-safe pressure relief in the event of a blockage.
  • Page 238 Tip: The liquid waste system collects waste without requiring a fitted connection. Waste drains through the connector at the base of the instrument and into the waste bottle. See Connecting liquid waste lines (Page 273). 4. Using a long, finger-tight fitting, connect orange, 1/16-inch, 825-mm PEEK tubing from port 2 of the sample selector valve to the wash bottle.
  • Page 239 Figure 6–134: Connecting the sample selector valve to the diverter valve WASH - W SAMPLE - A CALIBRANT - C LOCKMASS - B Diverter valve 8. Using a long, finger-tight fitting, connect 1/16-inch, 350-mm, natural-colored PEEK tubing to port 4 of the diverter valve and thread it securely into the waste port. Tip: This is the same waste port as that used in step 3.

  • Page 240: Maintaining The Instrument's Valve Pods

    Important: Ensure that the tubing does not become trapped when you close the access doors to the fluidics system. 6.34 Maintaining the instrument's valve pods With prolonged use, the surfaces that are regularly exposed to the solutions within the fluidics valves (the reference selector, sample selector, and diverter valves) can become damaged.
  • Page 241 Figure 6–136: Reference/LockSpray selector, sample selector, and diverter valves WASH - W SAMPLE - A CALIBRANT - C LOCKMASS - B Reference/LockSpray selector valve Sample selector valve Diverter valve 4. Loosen and then remove the locking ring that secures the valve pod to the instrument. Figure 6–137: Removing the valve pod locking ring Note: For illustrative purposes, the same image is used for the reference/LockSpray and...

  • Page 242: Installing The Valve Pod

    Locking ring Diverter valve pod 5. Remove the valve pod from the valve pod housing. Figure 6–138: Removing the valve pod Note: For illustrative purposes, the diverter valve pod is shown. Diverter valve pod housing Diverter valve pod 6. If you are replacing the valve pod, dispose of the old valve pod according to local environmental regulations.
  • Page 243 To install the valve pod: Warning: To avoid personal contamination with biologically hazardous, toxic, and corrosive materials, wear chemical-resistant, powder-free gloves and protective eyewear when performing this procedure. 1. Before you install the valve pod, note the profile on the valve pod union and how it connects to the corresponding fitting inside the valve pod housing.

  • Page 244: Replacing The Valve Pod's Isolation Seal And Rotor Seal

    5. Fit and then tighten the locking ring to secure the valve pod to the instrument. Note: For illustrative purposes, the diverter valve pod is shown. Figure 6–140: Fitting the locking ring Locking ring 6. Fit and tighten the PEEK thumbscrews to the valve or valves of interest, and then attach the tubes as indicated by the tubing schematic on the inside of the fluidics door.
  • Page 245 Warning: To avoid spreading contamination with biologically hazardous, toxic, and corrosive materials, dispose of all waste materials according to local environmental regulations. 1. To prepare for removing the valve pod from the instrument, stop solvent flow, ensure that the instrument is in Standby, and stop desolvation gas flow. For further details, see Preparing the instrument for working on the source (Page 106).
  • Page 246 Figure 6–142: Valve pod assembly Rotor seal mount Isolation seal Rotor seal Stator ring Stator face assembly Stator Stator screws 5. Remove the rotor seal and isolation seal from the rotor seal mount and dispose of them according to local environmental regulations. March 21, 2023, 715007811 Ver.
  • Page 247 6. Fit the new isolation seal to the rotor seal mount, and then fit the new rotor seal. Figure 6–143: Fitting the isolation seal and rotor seal Rotor seal mount Isolation seal Rotor seal 7. In this sequence, fit the stator ring, stator face assembly, and stator. 8.

  • Page 248: A Safety Advisories

    Heed all warnings when you install, repair, or operate any Waters instrument or device. Waters accepts no liability in cases of injury or property damage resulting from the failure of individuals to comply with any safety precaution when installing, repairing, or operating any of its instruments or devices.

  • Page 249: Specific Warnings

    (Risk of high-pressure gas release.) A.1.1 Specific warnings A.1.1.1 Burst warning This warning applies to Waters instruments and devices fitted with nonmetallic tubing. Warning: To avoid injury from bursting, nonmetallic tubing, heed these precautions when working in the vicinity of such tubing when it is pressurized: •...
  • Page 250 A.1.1.4 Biohazard warning The following warning applies to Waters instruments and devices that can process biologically hazardous materials. Biologically hazardous materials are substances that contain biological agents capable of producing harmful effects in humans.

  • Page 251: Notices

    Guidelines prescribing the proper use and handling of such materials appear in the latest edition of the National Research Council's publication, Prudent Practices in the Laboratory: Handling and Management of Chemical Hazards. To avoid injury when working with hazardous materials, consult the Safety Data Sheets regarding the solvents you use.

  • Page 252: Warnings That Apply To All Waters Instruments And Devices

    A.5 Warnings that apply to all Waters instruments and devices When operating this device, follow standard quality-control procedures and the equipment guidelines in this section. Warning: Changes or modifications to this unit not expressly approved by the party responsible for compliance could void the user’s authority to operate the equipment.
  • Page 253 Warning: Use caution when working with any polymer tubing under pressure: • Always wear eye protection when near pressurized polymer tubing. • Extinguish all nearby flames. • Do not use tubing that has been severely stressed or kinked. • Do not use nonmetallic tubing with tetrahydrofuran (THF) or concentrated nitric or sulfuric acids.
  • Page 254 Avvertenza: Fare attenzione quando si utilizzano tubi in materiale polimerico sotto pressione: • Indossare sempre occhiali da lavoro protettivi nei pressi di tubi di polimero pressurizzati. • Spegnere tutte le fiamme vive nell'ambiente circostante. • Non utilizzare tubi eccessivamente logorati o piegati. •...
  • Page 255 • 非金属チューブには、テトラヒドロフラン (THF) や高濃度の硝酸または硫酸など を流さないでください。 • 塩化メチレンやジメチルスルホキシドは、非金属チューブの膨張を引き起こす場合 があり、その場合、チューブは極めて低い圧力で破裂します。 This warning applies to Waters instruments fitted with nonmetallic tubing or operated with flammable solvents. Warning: The user shall be made aware that if the equipment is used in a manner not specified by the manufacturer, the protection provided by the equipment may be impaired.

  • Page 256: Warnings That Address The Replacement Of Fuses

    警告： 使用者必須非常清楚如果設備不是按照製造廠商指定的方式使用，那麼該設備 所提供的保護將被消弱。 경고 제조업체가 명시하지 않은 방식으로 장비를 사용할 경우 장비가 제공하는 보호 수단이 제대로 작동하지 않을 수 있다는 점을 사용자에게 반드시 인식시켜야 합니다. 警告 ユーザーは、製造元により指定されていない方法で機器を使用すると、機器が 提供している保証が無効になる可能性があることに注意して下さい。 A.6 Warnings that address the replacement of fuses The following warnings pertain to instruments and devices equipped with user-replaceable fuses.

  • Page 257: Electrical Symbols

    警告 火災予防のために、ヒューズを交換する場合は、装置ヒューズカバーの隣のパ ネルに記載されている種類および定格のヒューズをご使用ください。 Finding fuse types and ratings when that information does not appear on the instrument or device: Warning: To protect against fire, replace fuses with those of the type and rating indicated in the “Replacing fuses” section of the Maintenance Procedures chapter. Avertissement : Pour éviter tout risque d’incendie, remplacez toujours les fusibles par d’autres du type et de la puissance indiqués dans la rubrique «...

  • Page 258: Handling Symbols

    Symbol Description Electrical power off Standby Direct current Alternating current Alternating current (three phase) Safety ground Frame or chassis terminal connection Fuse Functional ground Input Output Indicates that the device or assembly is susceptible to damage from electrostatic discharge (ESD) A.8 Handling symbols The following handling symbols and their associated statements can appear on labels affixed to the packaging in which instruments, devices, and component parts are shipped.
  • Page 259 Symbol Description Fragile! Use no hooks! Upper limit of temperature Lower limit of temperature Temperature limitation March 21, 2023, 715007811 Ver. 02 Page 259...

  • Page 260: B External Connections

    To avoid damaging the mass spectrometer, observe the following precautions: • Contact Waters Technical Service before moving the instrument. • If you must transport the instrument, or remove it from service, contact Waters Technical Service for recommended cleaning, flushing, and packaging procedures.
  • Page 261 Figure B–1: Mass spectrometer rear panel connectors Instrument LAN External Connections 1 Service Bus EPC Com Port External Connections 2 Video Output OUT - External Connections 1 External Connections 2 System Activity 200 - 240V, 50/60Hz, 1.1kW Instrument LAN Video output Event inputs and outputs Pump switch Electronics switch...

  • Page 262: Connecting The Dry Vacuum Pump

    Vacuum port B.2 Connecting the dry vacuum pump Rough pumping of the Xevo G3 QTof is provided by an EBARA EV-SA20 or an Edwards nXR120i dry vacuum pump. For proper ventilation, the following minimum clearances must apply: Figure B–2: EBARA dry vacuum pump clearances...

  • Page 263: Required Materials

    Figure B–3: Edwards dry vacuum pump clearances Left side minimum clearance is 100 mm (4 inches) Top minimum clearance is 100 mm (4 inches) Rear minimum clearance is 100 mm (4 inches) Right side minimum clearance is 100 mm (4 inches) Front minimum clearance is 100 mm (4 inches) Required materials •...
  • Page 264 • 12.7-mm clear PVC exhaust tubing • PVC hose clamps • Vacuum hose To connect the dry vacuum pump: Warning: To avoid personal contamination with biologically hazardous or toxic compounds, wear clean, chemical-resistant, powder-free gloves when performing this procedure. Warning: To avoid injury, do not step or stand on the vacuum pump.
  • Page 265 Figure B–5: Vacuum pump tubing connections to the EBARA pump NW40 clamp Vacuum hose (from the rear of the Xevo G3 QTof) Exhaust tubing NW40 clamp Exhaust silencer Gas ballast plug NW40 clamp and exhaust filter (supplied with the EBARA vacuum pump...
  • Page 266 Power connector Pump control cable Note: A Waters service engineer installs the EBARA pump with the gas ballast plug loose. Ensure that the plug remains loose at all times. Doing so prevents condensation from developing inside the pump. Figure B–6: Vacuum pump tubing connections to the Edwards pump...

  • Page 267: Making The Electrical Connections To The Dry Vacuum Pump

    To repair or replace the pump, contact Waters Technical Support. For more information, see Contacting Waters (Page iii). B.3 Making the electrical connections to the dry vacuum pump Figure B–7: Vacuum pump electrical connections to the rear of the Xevo G3 QTof mass spectrometer AUTO OVERRIDE RESET RESET...

  • Page 268: Connecting To The Nitrogen Gas Supply

    B.4 Connecting to the nitrogen gas supply Required materials • Chemical-resistant, powder-free gloves • 6-mm PTFE tubing (included in the Xevo G3 QTof Installation Kit) • Nitrogen regulator (not supplied) Warning: To prevent ignition of flammable solvents in the source enclosure, always use nitrogen of at least 95% purity as the API gas.

  • Page 269: Connecting The Collision Cell Gas Supply

    3. Connect the free end of the 6-mm PTFE tubing to the nitrogen regulator. 4. Set the nitrogen regulator to 6.5 to 7.0 bar (94 to 102 psi). 5. Ensure that there are no gas leaks at any of the nitrogen gas supply fittings. B.5 Connecting the collision cell gas supply You can use either argon or nitrogen as the collision cell gas supply.

  • Page 270: Connecting The Nitrogen Exhaust Line

    B.6 Connecting the nitrogen exhaust line Required materials • Chemical-resistant, powder-free gloves • Utility knife • Nitrogen exhaust trap bottle • 4-mm PTFE tubing and 12-mm PTFE tubing (included in the Xevo G3 QTof installation kit) March 21, 2023, 715007811 Ver. 02 Page 270...
  • Page 271 Waters recommends that the exhaust system include the capability to drain off any solvent accumulation, or that the exhaust system is designed to prevent condensation, for example, by being open and maintaining a gas flow of at least 5000 L/hour through the exhaust system.
  • Page 272 Figure B–9: Nitrogen exhaust trap bottle To laboratory exhaust port From instrument pilot valve port Bottle support Nitrogen exhaust trap bottle From instrument exhaust connection One-way valve Notice: To avoid gas leaks, use the tube cutter to cut the PTFE tubing squarely. 2.

  • Page 273: Connecting Liquid Waste Lines

    Notice: To avoid gas leaks, use the tube cutter to cut the PTFE tubing squarely. 8. Cut a second length of 12-mm tubing long enough to connect the nitrogen exhaust trap bottle to the exhaust vent. 9. Insert one end of the tubing into the outlet port on the nitrogen exhaust trap bottle. 10.
  • Page 274 Figure B–10: Connecting liquid waste lines Fluidics waste drain Source waste drain Fluidics and source waste drains Warning: To prevent leakage of biologically hazardous, toxic, or corrosive materials: • Do not crimp or bend drain lines. A crimp or bend can impede flow to the waste container.

  • Page 275: Connecting The Workstation (Systems With No Acquity Lc)

    Figure B–11: Positioning the drain tube Correct Incorrect B.8 Connecting the workstation (systems with no ACQUITY Before connecting the workstation to the instrument, set up the workstation according to its accompanying instructions. Locate the workstation within three meters (ten feet) of the mass spectrometer.

  • Page 276: Connecting Ethernet Cables (Systems With Acquity Lc)

    B.9 Connecting Ethernet cables (systems with ACQUITY LC) Requirement: Use shielded Ethernet cables with the mass spectrometer to ensure compliance with FCC limits. To make Ethernet connections: 1. Connect one end of one shielded Ethernet cable to the ACQUITY instrument’s network switch, and then connect the free end to the Ethernet card on the pre-configured ACQUITY workstation.
  • Page 277 Figure B–12: Input and output connector locations Instrument LAN External Connections 1 Service Bus EPC Com Port External Connections 2 Video Output OUT - External Connections 1 External Connections 2 System Activity External connections identification tables External connections 1 External connections 2 Figure B–13: Input/output signal connector configuration Table B–1: External connections 1 Function...

  • Page 278: Signal Connections

    Table B–1: External connections 1 (continued) Function Rating CE Interlock Out, normally +30 V dc, 100 mA closed (N/C) CE Interlock Out, normally +30 V dc, 100 mA open (N/O) Table B–2: External connections 2 Function Rating Analog Out +, instrument- None driven electrical output Analog Out -, ground...
  • Page 279 Table B–3: Mass spectrometer signal connections (continued) Signal connections Description CE interlock Out Interfaces with a capillary electrophoresis power supply so that the instrument is safely interlocked against high voltages. Requirement: To meet the regulatory requirements of immunity from external electrical disturbances, install connection covers over the signal connectors.
  • Page 280 Figure B–15: Inserting the clamp and shield Clamp Connection cover Shield 5. Insert the connector with the signal cable into the connection cover and position the clamp over the cable leads. Tighten the clamp into place with the second self-tapping screw. Figure B–16: Inserting the connector Cable leads Clamp...

  • Page 281: Connecting The Contact-Closure Cable To An Acquity Lc

    To connect the contact-closure cable: 1. Connect the leads at one end of the contact-closure cable to the Xevo G3 QTof’s signal connectors, as shown in the following table. Table B–4: Xevo G3 QTof contact-closure cable connections...

  • Page 282: Connecting To The Electricity Source

    Table B–4: Xevo G3 QTof contact-closure cable connections (continued) Connector Function Pin (lead) Gas Fail Interlock, common 3 (black) 2. Connect the leads at the other end of the contact-closure cable to the ACQUITY LC system’s signal connectors, as shown in the following table.

  • Page 283: Connecting The Camera For The Nanolockspray Source

    3. Select Search for the best driver in these locations. 4. Select Include this location in the search, and then: • for MassLynx, browse to C:\MassLynx\USBCameraDriver. • for UNIFI, browse to C:\Program Files\Waters\UNIFI\USBCameraDriver. 5. Click Next. Result: The software loads.

  • Page 284: C Materials Of Construction And Compatible Solvents

    C.1 Preventing contamination For information on preventing contamination, refer to Controlling Contamination in LC/MS Systems (715001307), which is available at www.waters.com. C.2 Items exposed to solvent The following table lists the items that can be exposed to solvent. You must evaluate the safety issues if the solvents used in your application differ from the solvents typically used with these items.

  • Page 285: Solvents Used To Prepare Mobile Phases

    Table C–1: Items exposed to solvent (continued) Item Material Pumping block Aluminum and Xylan Solvent waste/leak management Tygon tubing 2375, polyurethane Source enclosure Aluminum Source enclosure view port Silica float glass Trap bottle Polypropylene Trap bottle push-in fittings Nitrile butadiene rubber, stainless steel, polybutylene terephthalate, and polyoxymethylene C.3 Solvents used to prepare mobile phases...

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