Thermo Scientific TSQ Series Hardware Manual
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Thermo Scientific TSQ Series Hardware Manual

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TSQ Series
Hardware Manual
70111-97163 Revision E
June 2014

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  • Page 1 TSQ Series Hardware Manual 70111-97163 Revision E June 2014...
  • Page 2 Foundation, Ion Max, TSQ, TSQ Quantum Access, TSQ Quantum Access MAX, TSQ Vantage, TSQ Vantage EMR, TSQ Vantage AM, TSQ Quantum Ultra, TSQ Quantum Ultra EMR, and TSQ Quantum Ultra AM are trademarks, and Accela, TSQ Quantum, and Thermo Scientific are registered trademarks of Thermo Fisher Scientific Inc.
  • Page 3 Regulatory Compliance Thermo Fisher Scientific performs complete testing and evaluation of its products to ensure full compliance with applicable domestic and international regulations. When the system is delivered to you, it meets all pertinent electromagnetic compatibility (EMC) and safety standards as described below. Changes that you make to your system might void compliance with one or more of these EMC and safety standards.
  • Page 4 TSQ Quantum Ultra EMC Directive 89/336/EEC as amended by 92/31/EEC and 93/68/EEC EMC compliance has been evaluated by Underwriters Laboratories Inc. EN 55011: 1998 EN 61000-4-4: 1995, A1: 2001, A2: 2001 EN 61000-3-2: 1995, A1: 1998, A2: 1998, A14: 2000 EN 61000-4-5: 1995, A1: 2001 EN 61000-3-3: 1998 EN 61000-4-6: 2001...
  • Page 5 INCLUDING INTERFERENCE THAT MAY CAUSE UNDESIRED OPERATION. Notice on Lifting and Handling of Thermo Scientific Instruments CAUTION Read and understand the various precautionary notes, signs, and symbols contained inside this manual pertaining to the safe use and operation of this product before using the device.
  • Page 6 Notice on the Proper Use of Thermo Scientific Instruments In compliance with international regulations: Use of this instrument in a manner not specified by Thermo Fisher Scientific could impair any protection provided by the instrument. Notice on the Susceptibility to Electromagnetic Transmissions Your instrument is designed to work in a controlled electromagnetic environment.
  • Page 7 WEEE Compliance This product complies with the European Union’s Waste Electrical & Electronic Equipment (WEEE) Directive 2002/96/EC. It is marked with the following symbol: Thermo Fisher Scientific is registered with B2B Compliance (B2Bcompliance.org.uk) in the UK and with the European Recycling Platform (ERP-recycling.org) in all other countries of the European Union and in Norway. If this product is located in Europe and you want to participate in the Thermo Fisher Scientific Business-to-Business (B2B) Recycling Program, send an email request to weee.recycle@thermofisher.com...
  • Page 8 Conformité DEEE Ce produit est conforme avec la directive européenne (2002/96/EC) des Déchets d'Equipements Electriques et Electroniques (DEEE). Il est marqué par le symbole suivant: Thermo Fisher Scientific s'est associé avec une ou plusieurs sociétés de recyclage dans chaque état membre de l’Union Européenne et ce produit devrait être collecté...
  • Page 9 San Jose products. im Unklaren sind, setzen Sie sich, bevor Sie póngase en contacto con el personal de servicio técnico l’assistance technique pour les produits Thermo Scientific fortfahren, mit dem technischen Support für de los productos Thermo Scientific San Jose.
  • Page 10 Technical Support for Thermo Scientific im unklaren sind, setzen Sie sich, bevor Sie póngase en contacto con el personal de servicio técnico l’assistance technique pour les produits Thermo Scientific San Jose products. fortfahren, mit Ihrer lokalen technischen de los productos Thermo Scientific San Jose.
  • Page 11 す。この標識記号は機器にも表示されています。この危険の詳細につい is not included in the other categories. 危险的详细信息，参阅适当的仪器手册。若对任何步骤的安全事项有疑 ては、機器のマニュアルを参照してください。 This symbol also appears on the 问，联系 Thermo Scientific San Jose 产品的技术支持中心。 手順の安全性にご不明な点がある場合は、Thermo Scientific San Jose 製品の instrument. For details about the hazard, テクニカルサポートまでお問い合わせください。 refer to the instrument manual. When the safety of a procedure is questionable, contact Technical Support for Thermo Scientific San Jose products.
  • Page 12 作業の障害物 : 床にあるコード、ホース、その他の物体に注意してく 绊倒危险：注意地面上的线、管或其他物品。 or other objects located on the floor. ださい。 When the safety of a procedure is 手順の安全性にご不明な点がある場合は、Thermo Scientific San Jose 製品の 如对安全程序有疑问，联系 Thermo Scientific San Jose 产品的技术支持 questionable, contact Technical Support テクニカルサポートまでお問い合わせください。 中心。 for Thermo Scientific San Jose products.

  • Page 13: Table Of Contents

    Divert/Inject Valve ..........16 Thermo Scientific TSQ Series Hardware Manual xiii...
  • Page 14 Emptying the Solvent Waste Bottle ....... . 68 TSQ Series Hardware Manual...
  • Page 15 Replacing PCBs and Power Supplies ....... . 105 Thermo Scientific TSQ Series Hardware Manual...
  • Page 16 Index ............. . .111 TSQ Series Hardware Manual...

  • Page 17: Preface

    Preface This TSQ Series Hardware Manual contains a description of the modes of operation and principle hardware components of your Thermo Scientific™ TSQ™ system. In addition, this manual provides step-by-step instructions for cleaning and maintaining your mass spectrometer. Contents •...

  • Page 18: Safety And Special Notices

    Observe the following safety precautions when you operate or perform service on the mass spectrometer. CAUTION Do not perform any servicing other than that contained in the TSQ Series Hardware Manual. To avoid personal injury or damage to the instrument, do not perform any servicing other than that contained in the TSQ Series Hardware Manual or related manuals unless you are authorized to do so.

  • Page 19: Solvent And Gas Purity Requirements

    The TSQ mass spectrometer uses argon as a collision gas. The argon must be high purity (99.995%). The required gas pressure is 135 ± 70 kPa (20 ± 10 psig). Thermo Fisher Scientific has found that particulate filters are often contaminated and are therefore not recommended. Thermo Scientific TSQ Series Hardware Manual...

  • Page 20: Service Philosophy

    Chapter 8, “Replaceable Parts.” For mechanical failures: A mechanical assembly typically is to be repaired to the level of the smallest item listed in Chapter 8, “Replaceable Parts.” TSQ Series Hardware Manual Thermo Scientific...

  • Page 21: Contacting Us

    3. To locate the document, click Search and enter your search criteria. For Document Type, select Manual. Email—to send feedback directly to Technical Publications: techpubs-lcms@thermofisher.com Web—to complete a survey about this Thermo Scientific document: www.surveymonkey.com/s/PQM6P62 Thermo Scientific TSQ Series Hardware Manual...

  • Page 23: Introduction

    Introduction TSQ Series mass spectrometers are members of the Thermo Scientific family of mass spectrometers. The TSQ Series mass spectrometer is an advanced analytical instrument that includes a syringe pump, a divert/inject valve, a mass spectrometer, and a data system.
  • Page 24 The instrument can also be used as a single-stage mass spectrometer by transmitting the ions through the first and second rod assemblies followed by mass analysis in the third rod assembly. TSQ Series Hardware Manual Thermo Scientific...

  • Page 25: Ionization Modes

    • MS/MS scan modes product scan mode, parent scan mode, neutral loss scan mode • Data-dependent scan mode The scan modes that can be employed depend on the number and type of rod assemblies and the voltages applied to the rod assemblies. Thermo Scientific TSQ Series Hardware Manual...
  • Page 26 Fragment ions = collisions with argon gas cause ions to fragment A rod assembly is a regular array of metal rods. See “Mass Analyzer” page 28 for a discussion of the rod assemblies used on the TSQ Series instrument. TSQ Series Hardware Manual Thermo Scientific...

  • Page 27: Q1Ms And Q3Ms Scan Modes

    A mass spectrum obtained in the product scan mode (product mass spectrum) is the mass spectrum of a selected parent ion. Figure 1 illustrates the product scan mode. Thermo Scientific TSQ Series Hardware Manual...

  • Page 28: Parent Scan Mode

    Q1 (the parent ions), whereas data for the ion intensity axis is obtained from Q3 (from monitoring the product ion). Figure 2 illustrates the parent scan mode. TSQ Series Hardware Manual Thermo Scientific...

  • Page 29: Neutral Loss Scan Modes

    (the neutral loss mass) is equal to the difference in the mass ranges being scanned by the two mass analyzers. Thus, a neutral loss mass spectrum is a spectrum that shows all the parent ions that lose a neutral species of a selected mass. Thermo Scientific TSQ Series Hardware Manual...
  • Page 30 CO from aldehydes, HX from halides, and H O from alcohols). Figure 3. Illustration of the neutral loss scan mode RF Only + Ar Q3 = Q1 -  Q1 Scanning Q1 m/z TSQ Series Hardware Manual Thermo Scientific...

  • Page 31: Data Dependent Scan Mode

    TSQ system generates product spectra. Later, you can decide if the information is useful. Because a data-dependent scan needs to use a target ion from a previous scan, the first scan event cannot be a data-dependent scan. Thermo Scientific TSQ Series Hardware Manual...

  • Page 32: Scan Types

    SIM can achieve greater speed because it monitors only a few ions of interest; SIM does not monitor regions of the spectrum that are empty or have no ions of interest. TSQ Series Hardware Manual Thermo Scientific...

  • Page 33: Selected Reaction Monitoring

    Data Types You can acquire and display mass spectral data (intensity versus mass-to-charge ratio) with the TSQ mass spectrometer in one of two data types: • Profile Data Type • Centroid Data Type Thermo Scientific TSQ Series Hardware Manual...

  • Page 34: Profile Data Type

    Quantum™ Access™, TSQ Quantum Access MAX™, TSQ Vantage EMR™, and TSQ Quantum Ultra EMR™ mass spectrometers), or 10 to 1500 Da (TSQ Vantage™, TSQ Vantage AM™, TSQ Quantum Ultra™ and TSQ Quantum Ultra AM™ mass spectrometers). TSQ Series Hardware Manual Thermo Scientific...

  • Page 35: Chapter 2 Functional Description

    The system electronics receive and amplify the ion current signal from the ion detection system. That signal is then passed on to the data system for further processing, storage, and display. The data system provides the primary TSQ mass spectrometer user interface. Thermo Scientific TSQ Series Hardware Manual...

  • Page 36: Autosampler

    LC/MS analyses. Autosampler Start/Stop signals with the TSQ mass spectrometer are provided by contact closure. Refer to the TSQ Series Getting Connected Guide for information on connecting an autosampler to the TSQ mass spectrometer by contact closure.

  • Page 37: Liquid Chromatograph

    You can control most LCs and the corresponding UV detectors directly from the TSQ data system computer. You can set the flow rate from 0 to 1000 μL/min or more. Refer to the TSQ Series Getting Connected Guide for information on connecting an LC to the TSQ mass spectrometer.

  • Page 38: Divert/Inject Valve

    8. The divert valve enables switching the solvent front, gradient endpoint, or any portion of the LC run to waste. The TSQ Series Getting Started Guide provides procedures for plumbing the valve in the loop injector or divert valve configuration.
  • Page 39 Divert/inject valve plumbed as a loop injector and as a divert valve Plumbed as a loop injector Plumbed as a divert valve Plug waste (optional) From syringe pump From waste LC pump From LC pump ion source ion source Thermo Scientific TSQ Series Hardware Manual...

  • Page 40: Mass Spectrometer

    The mass spectrometer includes the following components: • Controls and Indicators • API Source • Ion Source Interface • Ion Optics • Mass Analyzer • Ion Detection System • Vacuum System and Inlet Gases Hardware • Electronic Assemblies TSQ Series Hardware Manual Thermo Scientific...

  • Page 41: Controls And Indicators

    The Scan LED flashes blue whenever the mass spectrometer is on and is scanning ions. The syringe pump LED illuminates green whenever the syringe pump is pumping. The LED illuminates yellow if the syringe pump is at the end of its travel. Thermo Scientific TSQ Series Hardware Manual...
  • Page 42 Refer to Manual Forepump 1 Forepump 2 Power In Qualified Service Personnel Only V ~230, 50/60 Hz, 15.0 A Max V ~230, 50/60 Hz, V ~230, 50/60 Hz, 5.0 A Max 5.0 A Max TSQ Series Hardware Manual Thermo Scientific...
  • Page 43 The LED is off when the forepump current sensor does not detect current to the forepump. If the current sensor detects a loss of current when the TSQ mass spectrometer is on, high voltage turns off and the vacuum system vents. Thermo Scientific TSQ Series Hardware Manual...

  • Page 44: Api Source

    (except for the atmospheric pressure side of the ion sweep cone). The ion source interface includes an ion transfer tube, two cartridge heaters, a heater block, a platinum probe sensor, a vent prevent ball, and an ion sweep cone. See Figure TSQ Series Hardware Manual Thermo Scientific...
  • Page 45 The vent prevent ball falls into the space occupied by the ion transfer tube when the tube is removed, thus preventing air from entering the vacuum manifold. The vent prevent ball allows you to remove the ion transfer tube for cleaning without venting the system. Thermo Scientific TSQ Series Hardware Manual...

  • Page 46: Ion Optics

    This fragmentation, called ion source collision-induced dissociation (CID), decreases sensitivity. When you tune the TSQ mass spectrometer, you adjust the tube lens offset voltage to maximize sensitivity by balancing desolvation with fragmentation. TSQ Series Hardware Manual Thermo Scientific...
  • Page 47 The tube lens and skimmer, or the S-lens and exit lens, mount to the ion source interface cage. Thermo Scientific TSQ Series Hardware Manual...
  • Page 48 Increasing the offset voltage increases the translational kinetic energy of the ions. Typical values of the Q00 offset voltage are 0 and ±4 V (negative for positive ions and positive for negative ions). Figure 20. Q00 rf lens Front TSQ Series Hardware Manual Thermo Scientific...
  • Page 49 The value ranges between 0 and ±300 V. Lenses L11 and L12 also act as a vacuum baffle between the Q0 ion optics chamber and the mass analyzer chamber. Thermo Scientific TSQ Series Hardware Manual...

  • Page 50: Mass Analyzer

    Figure 23. Mass analyzer, ion detection system, and ion optics Ion detection system Lens L4 Q3 quadrupole Lenses L31, L32, L33 Q2 collision cell Ion source interface Lenses Q00 rf L21, L22, L23 quadrupole quadrupole lens TSQ Series Hardware Manual Thermo Scientific...
  • Page 51 Q2 has become synonymous with the term collision cell. Technically, the collision cell is the chamber that encloses Q2 where collision-induced dissociation can take place if the argon collision gas is present. See Figure Thermo Scientific TSQ Series Hardware Manual...
  • Page 52 0 to ±840 V. Voltages of the same amplitude and sign are applied to each rod pair. However, the voltages applied to the other rod pair are equal in amplitude but opposite in sign. TSQ Series Hardware Manual Thermo Scientific...
  • Page 53 Figure 28. Magnitude of the rf and dc voltages applied to the rods of the Q1 and Q3 mass analyzers RF voltage 10,000 V P/P 840 V dc voltage Voltage Atomic mass units Thermo Scientific TSQ Series Hardware Manual...
  • Page 54 The mechanism of dissociation involves converting some of the translational kinetic energy (TKE) of the ion into internal energy. This collision places the ion in an excited state. If the internal energy is sufficient, the ion fragments. TSQ Series Hardware Manual Thermo Scientific...
  • Page 55 Q2. However, in MS/MS experiments, the quadrupole offset voltage applied to Q3 usually varies as a scan proceeds. The TSQ mass spectrometer automatically computes the Q3 quadrupole offset voltage necessary and then varies the voltage, as appropriate, as each scan proceeds. Thermo Scientific TSQ Series Hardware Manual...
  • Page 56 Q3) together form a three-element aperture lens. The first and third lenses are generally set to similar or identical values and the central lens is set to a value different (either higher or lower) from the other two. TSQ Series Hardware Manual Thermo Scientific...

  • Page 57: Ion Detection System

    The anode screws into the anode feedthrough in the base plate. Secondary particles from the conversion dynode strike the inner walls of the electron multiplier cathode with sufficient energy to eject electrons. The ejected electrons are Thermo Scientific TSQ Series Hardware Manual...
  • Page 58 Because of the off-axis orientation of the ion detection system relative to the mass analyzer, neutral molecules from the mass analyzer tend not to strike the conversion dynode or electron multiplier. As a result, noise from neutral molecules is reduced. TSQ Series Hardware Manual Thermo Scientific...

  • Page 59: Vacuum System And Inlet Gases Hardware

    • Vent valve • Collision gas flow control valves • Sheath gas valve • Auxiliary gas valve A functional block diagram of the vacuum system and inlet gasses hardware is shown in Figure Thermo Scientific TSQ Series Hardware Manual...
  • Page 60 Q0 ion optics region. The high vacuum port of the turbomolecular pump evacuates the region inside the fourth chamber, called the analyzer – region, to less than 10 Torr. The turbomolecular pump in turn discharges into the forepump through the foreline. TSQ Series Hardware Manual Thermo Scientific...
  • Page 61 • Two feedthroughs for the Q1 quadrupole rf voltage • Two feedthroughs for the Q3 quadrupole rf voltage • A feedthrough for the Q2 quadrupole rf voltage • A feedthrough for lens L21, L22, L23, L31, L32, and L33 voltages Thermo Scientific TSQ Series Hardware Manual...
  • Page 62 (or roughing pumps) establish the vacuum necessary for the proper operation of the turbomolecular pump. The forepump also evacuates the inlet valve and the collision cell. The pump has a maximum displacement of 650 L/min and maintains a minimum pressure of approximately 1 Pa (0.01 Torr). TSQ Series Hardware Manual Thermo Scientific...
  • Page 63 You can set the collision gas pressure (0 to 5 mTorr) in the Define Scan dialog box of the EZ Tune window. Thermo Scientific TSQ Series Hardware Manual...
  • Page 64 Figure 32. Nitrogen and argon gas inlets Nitrogen In Nitrogen for Vent 690 ± 140 kPa 35 kPa MAX (100 ± 20 psi) (5 psi MAX) Argon In 135 ± 70 kPa (20 ± 10 psi) TSQ Series Hardware Manual Thermo Scientific...

  • Page 65: Electronic Assemblies

    The Analyzer Control PCB and the System Control PCB control all rf voltages. The Q1 and Q3 rf voltage amplifier circuits are identical, and the circuits for Q0 and Q2 are similar. Thermo Scientific TSQ Series Hardware Manual...

  • Page 66: Data System

    TSQ mass spectrometer acquires. The data system is composed of the following: • Computer Hardware • Data System / Mass Spectrometer / LC Communication, Contact Closure, and Line Power Connections • Data System / Local Area Network Interface TSQ Series Hardware Manual Thermo Scientific...

  • Page 67: Computer Hardware

    LC/MS system with a TSQ Series mass spectrometer, Accela Open Autosampler, and Accela 600 or 1250 Pump. The TSQ Series mass spectrometer communicates with the data system computer through an Ethernet link by way of an Ethernet switch. The Accela Pump communicates with the data system computer through a USB link and the Accela Open Autosampler communicates with the data system computer through an RS232 link.

  • Page 68: Data System / Local Area Network Interface

    For information about connecting the communication cables to the Accela LC system devices and making the contact closure connections for your Accela LC /TSQ Series MS system, refer to the Accela Getting Connected Guide. Data System / Local Area Network Interface The data system computer contains a secondary Ethernet adapter.
  • Page 69 Functional Description Data System Figure 33. LC/MS system with a TSQ Series mass spectrometer, an Accela Open Autosampler, and an Accela 600/1250 Pump Accela Open Autosampler interconnect cable (contact closure) Connect to Detector adapter cable autosampler (contact closure) TSQ Series...
  • Page 70 Functional Description Data System Figure 34. LC/MS system with a TSQ Series mass spectrometer, an Accela Autosampler, an Accela LC Pump, and an Accela PDA Detector TSQ mass spectrometer TSQ adapter cable (synchronization) Operating Mode Operating Mode System Reset Pump On...

  • Page 71: System Shutdown, Startup, And Reset

    For the recommended procedure, see “Shutting Down the System Completely” page To turn off the LC, autosampler, and computer in an emergency, use the on/off switches on the LC, autosampler, and computer, respectively. Thermo Scientific TSQ Series Hardware Manual...
  • Page 72 + 30V – Max Electronics Vacuum Start In Main Power Refer to Manual Forepump Power In Qualified Service Personnel Only V ~230, 50/60 Hz, 10.0 A Max V ~230, 50/60 Hz, 5.0 A Max TSQ Series Hardware Manual Thermo Scientific...

  • Page 73: Placing The System In Standby Condition

    “Cleaning the Ion Sweep Cone and Ion Transfer Tube” page 5. Leave the mass spectrometer power on. 6. Leave the LC power on. 7. Leave the autosampler power on. 8. Leave the data system power on. Thermo Scientific TSQ Series Hardware Manual...

  • Page 74: Shutting Down The System Completely

    When power to the vent valve solenoid shuts off, the vent valve opens and the vacuum manifold is vented to filtered air or nitrogen. • After about two minutes, the pressure of the vacuum manifold reaches atmospheric pressure. TSQ Series Hardware Manual Thermo Scientific...
  • Page 75 To start the Windows shutdown procedure, select Shut down and click OK. 11. Turn off the laser printer by using the on/off switch. 12. Turn off the autosampler by using the Main Power on/off switch. Thermo Scientific TSQ Series Hardware Manual...

  • Page 76: Starting Up The System After A Complete Shutdown

    Electronics service switch and the Vacuum service switch (TSQ Quantum Access or TSQ Quantum Access MAX) are both in the Service Mode position. 3. Plug in the power cord for the mass spectrometer. TSQ Series Hardware Manual Thermo Scientific...

  • Page 77: Starting Up The Autosampler

    Place the power switch on the autosampler in the On position. If necessary, configure the autosampler. For procedures for placing sample vials, preparing solvent and waste bottles, installing syringes, and so on, refer to the manual that came with the autosampler. Refer also to it’s Getting Connected Guide. Thermo Scientific TSQ Series Hardware Manual...

  • Page 78: Setting Up Conditions For Operation

    You must tune and calibrate the TSQ mass spectrometer (that is, optimize the tune and calibration parameters) perhaps once a quarter. Refer to “Automatic Tuning and Calibrating in the ESI/MS Mode” in the TSQ Series Getting Started Guide for a procedure for tuning and calibrating the TSQ mass spectrometer.

  • Page 79: Resetting The Mass Spectrometer

    There are two ways to reset the data system: • Resetting the Data System by Using the Windows Shutdown and Restart Procedure • Resetting the Data System by Turning the Personal Computer Off Then On Thermo Scientific TSQ Series Hardware Manual...

  • Page 80: Resetting The Data System By Using The Windows Shutdown And Restart Procedure

    4. To complete the shutdown and restart procedure, click OK or enter your password in the Logon Information dialog box. 5. When the shutdown and restart procedure has completed, choose Start > All Programs > Thermo Instruments > TSQ > TSQ Tune to display the EZ Tune window. TSQ Series Hardware Manual Thermo Scientific...

  • Page 81: Turning Off Selected Mass Spectrometer Components

    • Place the Main Power circuit breaker switch in the Off (O) position. Placing the Main Power circuit breaker switch in the Off (O) position removes all power to the mass spectrometer, including the vacuum system. Thermo Scientific TSQ Series Hardware Manual...
  • Page 82 (after 2 to 4 min) (after 2 to 4 min) Turbomolecular pump Forepump Vent Delay PCB Embedded computer Turbomolecular pump controller Power supply, electron multiplier, and conversion dynode Power supply, 8 kV PS1 power supply, +24 V TSQ Series Hardware Manual Thermo Scientific...
  • Page 83 PS2 power supply, +5, ±15, ±24 V dc PS3 power supply, +36, –28 V dc Fan, turbomolecular pump Fan, above manifold Fan, center wall Convectron gauge, foreline Convectron gauge, collision cell Ion gauge Thermo Scientific TSQ Series Hardware Manual...

  • Page 85: Chapter 4 Daily Operation

    ESI or APCI experiment, refer to “Optimizing the Mass Spectrometer with Your Compound in ESI/MS/MS Mode” or “Optimizing the Mass Spectrometer with Your Compound in APCI/MS/MS Mode” in the TSQ Series Getting Started Guide. Things to Do Before Operating the TSQ System...

  • Page 86: Checking The Argon And Nitrogen Supplies

    Instrument Status view of the EZ Tune window. To display the EZ Tune window, from the Windows taskbar choose Start > All Programs > Thermo Instruments > TSQ > TSQ Tune. Choose View > Instrument Status to display the Instrument Status view. TSQ Series Hardware Manual Thermo Scientific...
  • Page 87 Do not tighten fittings indiscriminately. Pay particular attention to fittings that have been changed recently or to fittings that have been subjected to heating and cooling. Make sure that the cover plates of the vacuum manifold are properly seated. Thermo Scientific TSQ Series Hardware Manual...

  • Page 88: Things To Do After Operating The Tsq System

    Select Aux Valve Flow in the device list, and then type 5 in the box and click Apply. e. Set the spray current to 0: Select Spray Current in the device list, and then type 0 in the box and click Apply. Go to step 6. TSQ Series Hardware Manual Thermo Scientific...

  • Page 89: Placing The System In Standby Condition

    2. Leave the mass spectrometer power on. 3. Leave the LC power on. 4. Leave the autosampler power on. 5. Leave the data system power on. Thermo Scientific TSQ Series Hardware Manual...

  • Page 90: Cleaning The Ion Sweep Cone And Ion Transfer Tube

    Thermo Fisher Scientific recommends checking the solvent level in the solvent waste bottle on a daily basis. If necessary, empty the solvent waste bottle. Dispose of the solvent waste in accordance with local and federal regulations. TSQ Series Hardware Manual Thermo Scientific...

  • Page 91: Removing And Reinstalling The Ion Source Housing

    2. Rotate the ion source housing locking levers 90 degrees to release the ion source housing from the ion source mount assembly. 3. Remove the ion source housing by pulling it straight off the ion source mount assembly, and place the housing in a safe location for temporary storage. Thermo Scientific TSQ Series Hardware Manual...
  • Page 92 Removing the Ion Max or Ion Max-S Ion Source Housing Figure 37. Ion Max source housing (front) Ion source housing locking lever (2x) Ion source housing drain Figure 38. Ion Max-S source housing (front) Ion source housing locking levers Ion source housing drain TSQ Series Hardware Manual Thermo Scientific...

  • Page 93: Installing The Ion Max Or Ion Max-S Ion Source Housing

    Carefully press the ion source housing onto the ion source mount. See Figure 39 Figure Figure 39. Ion source housing Ion source housing locking levers Guide pin holes Thermo Scientific TSQ Series Hardware Manual...
  • Page 94 Connect the 1 in. ID Tygon™ tubing (P/N 00301-22922) to the ion source housing drain fitting. b. Attach the free end of the hose to a dedicated drain system. Vent the drain system to a fume exhaust system. TSQ Series Hardware Manual Thermo Scientific...

  • Page 95: Ion Max And Ion Max-S Housing Maintenance

    Allow the housing to dry before you install it on the mass spectrometer. Be sure to follow all safety precautions in the sections regarding the installation and removal of the housing. For any additional service that might be required, contact your local Thermo Fisher Scientific service representative. Thermo Scientific TSQ Series Hardware Manual...

  • Page 97: Maintenance

    TSQ Vantage, the Q00 rf lens, the lens L0, and the fan filters. Procedures for replacing the ion transfer tube and the capillary heater assembly are also provided. For instructions on maintaining the LC or autosampler, refer to the manual that comes with the LC or autosampler. Thermo Scientific TSQ Series Hardware Manual...
  • Page 98 If the oil is cloudy or Manufacturer’s discolored documentation Add oil If the oil level is below the Manufacturer’s MIN mark documentation Change oil Every four months, or if oil Manufacturer’s remains cloudy or documentation discolored after purging TSQ Series Hardware Manual Thermo Scientific...

  • Page 99: Frequency Of Cleaning

    • The rf lens of the Q00 ion optics becomes dirty at a rate significantly slower than the API source, tube lens and skimmer, or S-lens and exit lens. See “Cleaning the Q00 Ion Optics” page Thermo Scientific TSQ Series Hardware Manual...
  • Page 100 CAUTION As with all chemicals, store and handle solvents and reagents according to standard safety procedures. Dispose of them according to local and federal regulations. TSQ Series Hardware Manual Thermo Scientific...

  • Page 101: Maintaining The Ion Sweep Cone And Ion Transfer Tube

    3. Lower the temperature of the ion transfer tube (capillary): a. In the EZ Tune window, click to open the Ion Source Devices dialog box. Figure Thermo Scientific TSQ Series Hardware Manual...
  • Page 102 Temperature box and click Apply. d. Allow the ion transfer tube (capillary) to cool to 50 °C or lower. See Figure Figure 42. Ion Source Devices dialog box showing the ion transfer tube at 50 °C TSQ Series Hardware Manual Thermo Scientific...
  • Page 103 Figure 44. Spray cone, ion transfer tube, O-ring, and ion sweep cone of the ion source interface Ion transfer tube Vespel O-ring Spray cone Ion sweep cone 7. Soak the ion transfer tube in a dilute solution of nitric acid to remove contaminants. Thermo Scientific TSQ Series Hardware Manual...
  • Page 104 “Installing the Ion Max or Ion Max-S Ion Source Housing” page Figure 45. Ion source interface, showing the sweep gas supply port in the API cone seal Sweep gas supply port TSQ Series Hardware Manual Thermo Scientific...
  • Page 105 Ion transfer tube part number TSQ Vantage series 70005-20423 TSQ Quantum Access series 70111-20972 TSQ Quantum Ultra series 97055-20199 TSQ Quantum Discovery Max 70111-20396 TSQ Quantum Discovery 70111-20100 TSQ Quantum AM 70111-20100 TSQ Quantum 70111-20100 Thermo Scientific TSQ Series Hardware Manual...

  • Page 106: Maintaining The Ion Source Interface Assembly

    Removing the Ion Max or Ion Max-S Ion Source Housing You must remove the Ion Max or Ion Max-S ion source housing to access the ion source interface assembly. See “Removing the Ion Max or Ion Max-S Ion Source Housing” page TSQ Series Hardware Manual Thermo Scientific...

  • Page 107: Removing The Ion Source Interface

    4. Place the assembly on a clean, lint-free surface. Figure 47. Removing the ion source interface Ion optics cage assembly Notch Ion source mount Ion source interface release lever Ion source interface Thermo Scientific TSQ Series Hardware Manual...

  • Page 108: Removing The S-Lens And Exit Lens (Tsq Vantage)

    3. Remove the exit lens from the S-lens and place it on a clean, lint-free surface. Figure 48. Removing the exit lens and S-lens from the ion source interface cage of the TSQ Vantage S-lens Thumbscrews Exit lens Ion source interface cage Lead pin socket Lead pin TSQ Series Hardware Manual Thermo Scientific...

  • Page 109: Cleaning The S-Lens And Exit Lens (Tsq Vantage)

    Figure 2. Place the skimmer on a clean, lint-free surface. 3. Push the tube lens, from the back, out of the contact ring support. 4. Place the tube lens on a clean, lint-free surface. Thermo Scientific TSQ Series Hardware Manual...

  • Page 110: Cleaning The Tube Lens And Skimmer (Tsq Quantum Access, Tsq Quantum Access Max, Or Tsq Quantum Ultra)

    You can air dry the skimmer and tube lens or blow dry them with nitrogen gas. In all cases, ensure that all solvent has evaporated from the components before reassembly. TSQ Series Hardware Manual Thermo Scientific...

  • Page 111: Reinstalling The S-Lens And Exit Lens (Tsq Vantage)

    Orient the skimmer so that the lead pin points toward the socket on the tube lens connection wire in the contact ring support. b. Insert the lead pin into the socket and firmly press the skimmer into the contact ring support. Thermo Scientific TSQ Series Hardware Manual...

  • Page 112: Reinstalling The Ion Source Interface Assembly

    You might also need to reinstall an ion source probe and LC liquid lines, as appropriate, as described in the corresponding topics in the TSQ Series Getting Connected Guide. Starting Up the System Start up the system as described in the topic “Starting Up the System after a Complete...

  • Page 113: Cleaning The Q00 Ion Optics

    Removing the Ion Source Interface Assembly Remove the ion source interface assembly to access the Q00 ion optics assembly. Remove the ion source interface assembly as described in the topic “Removing the Ion Source Interface” page Thermo Scientific TSQ Series Hardware Manual...

  • Page 114: Removing The Ion Optics Cage Assembly

    Figure 51. Removing the ion source interface cover screws Ion source interface cover screws 2. Using a hex ball driver, remove the roughing pump adapter access plate. See Figure Figure 52. Removing the roughing pump adapter access plate screws Access plate screws TSQ Series Hardware Manual Thermo Scientific...
  • Page 115 Using a hex ball driver, remove the three screws fastening the ion optics cage assembly to the ion source mount assembly. See Figure Figure 54. Removing the ion optics cage assembly retaining screws Thermo Scientific TSQ Series Hardware Manual...
  • Page 116 See Figure Figure 55. Pulling the ion source cable harness out of the ion optics cage assembly TSQ Series Hardware Manual Thermo Scientific...
  • Page 117 Carefully slide the ion optics cage assembly out of the ion source mount assembly. See Figure Figure 56. Removing the ion optics cage assembly d. Place the ion optics cage assembly on a clean, lint-free surface. Thermo Scientific TSQ Series Hardware Manual...

  • Page 118: Disassembling The Ion Optics Cage Assembly

    5. Using a hex ball driver, remove the three Q00 mounting screws that fasten the Q00 rf lens assembly to the Q00/L0 mount. Leave the lens L0 mounted in the PEEK™ Q00/L0 mount. TSQ Series Hardware Manual Thermo Scientific...

  • Page 119: Cleaning Q00 And L0

    Note Wear clean gloves to handle the parts after you clean them. 2. Dry the parts with a rapid stream of nitrogen gas. 3. Inspect each part for contamination and dust. If necessary, repeat the cleaning procedure. Thermo Scientific TSQ Series Hardware Manual...

  • Page 120: Reassembling The Ion Optics Cage Assembly

    Orient the Q0 mount assembly so that the flat side is on the same side as the two contacts. b. Secure the Q0 mount assembly on the ion optics cage with the 3 Q0 mounting screws. See Figure 57 page TSQ Series Hardware Manual Thermo Scientific...

  • Page 121: Reinstalling The Ion Optics Cage Assembly

    6. Carefully press the wiring harness down into the recess in the bottom of the ion source mount assembly so that the wires are out of the path of the ion source interface assembly that you will install in the next procedure. See Figure Thermo Scientific TSQ Series Hardware Manual...

  • Page 122: Reinstalling The Ion Source Interface Assembly

    Reinstall the Ion Max or Ion Max-S ion source housing as described in the topic “Installing the Ion Max or Ion Max-S Ion Source Housing” page Starting Up the System Start up the system as described in the topic “Starting Up the System after a Complete Shutdown” page TSQ Series Hardware Manual Thermo Scientific...

  • Page 123: Maintaining The Forepump

    Cleaning the Fan Filters You must clean the two fan filters every four months. The fan filters are located on the of the front cover and on the right side cover of the TSQ Series mass spectrometer.  To clean the fan filters 1.
  • Page 124 Align the front cover with the two guide pins on the TSQ mass spectrometer. v. Push the front cover against the TSQ mass spectrometer until the two spring catches lock. vi. Reconnect all tubing to the divert/inject valve and the syringe pump. TSQ Series Hardware Manual Thermo Scientific...

  • Page 125: Diagnostics And Pcb And Assembly Replacement

    If the instrument password is lost, you must reinstall the TSQ software to reset the default password (lctsq). Contents • Running the TSQ System Diagnostics • Replacing a Fuse • Replacing PCBs and Power Supplies Thermo Scientific TSQ Series Hardware Manual...

  • Page 126: Running The Tsq System Diagnostics

    The Field Service department can then do a preliminary evaluation of the problem before an engineer arrives at your site. TSQ Series Hardware Manual Thermo Scientific...

  • Page 127: Replacing A Fuse

    CAUTION The TSQ mass spectrometer electronic assemblies are close-packed to minimize the size of the system. Due to the complexity of removing and reinstalling the TSQ mass spectrometer electronic assemblies, only a Thermo Fisher Scientific service engineer can replace electronic assemblies. Thermo Scientific TSQ Series Hardware Manual...

  • Page 129: Replaceable Parts

    Fitting, ferrule, Swagelok, Front, 1/8 in......00101-08500 Fitting, ferrule, Swagelok, Front, 1/4 in......00101-10000 Thermo Scientific TSQ Series Hardware Manual...

  • Page 130: Tsq Vantage Instrument Specific Accessory Kit

    Cable, LC/MS ..........60053-63035 TSQ Series Hardware Manual...

  • Page 131: Hesi-Ii Probe Kit

    Fitting, Fingertight, Upchurch........00101-18081 Thermo Scientific TSQ Series Hardware Manual...
  • Page 132 5 μL sample loop, stainless steel........00110-22010 TSQ Series Hardware Manual...

  • Page 133: Index

    (note) Communication LED capillary, heated. See ion transfer tube description cathode, electron multiplier, description mass spectrometer reset Cautions mass spectrometer startup capillary heater cage assembly temperature compliance emergency shutdown forepump and line power Thermo Scientific TSQ Series Hardware Manual...
  • Page 134 (figure) divert/inject valve loop injection liquid chromatograph plumbing (figure) mass analyzer dynode mass spectrometer syringe pump TSQ mass spectrometer fuses, mass spectrometer, replacing electron multiplier anode, description description on/off status TSQ Series Hardware Manual Thermo Scientific...
  • Page 135 (location) functional description removing startup ion source mount liquid chromatograph, interconnect diagram (Accela figure System) guide pins location (figure) loop injection, divert/inject valve 85–86, ion source, description ion sweep cone cleaning description Thermo Scientific TSQ Series Hardware Manual...
  • Page 136 Power Entry Module, description procedures pressure readings (table) cleaning the exit lens resetting cleaning the skimmer RF voltage generation electronic assemblies cleaning the S-lens shutdown cleaning the tube lens Standby condition complete system shutdown starting up TSQ Series Hardware Manual Thermo Scientific...
  • Page 137 Q00/L0 mount assembly parent exploded view (figure) parent, illustrated (figure) location (figure) product Q1 quadrupole, figure Product, illustrated (figure) Q1MS and Q3MS scan modes Q1MS and Q3MS Q2 rod assembly, figure summary (table) Q3 quadrupole, figure Thermo Scientific TSQ Series Hardware Manual...
  • Page 138 Standby condition system checks starting up argon and nitrogen supplies syringe pump sample tube polyimide elongation tuning vacuum levels tuning, frequency System Control PCB, description TSQ Series Hardware Manual Thermo Scientific...
  • Page 139 Vacuum LED Thermo Scientific TSQ Series Hardware Manual...

This manual is also suitable for:

Tsq quantum access maxTsq quantum ultraTsq vantageTsq quantum access

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