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Thermo Scientific Orbitrap Exploris GC Operating Manual
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Thermo Scientific Orbitrap Exploris GC Operating Manual

Thermo Scientific Orbitrap Exploris GC Operating Manual

Mass spectrometers
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Orbitrap Exploris GC and
Orbitrap Exploris GC 240
Mass Spectrometers
Operating Manual
1R120631-0002 Revision A March 2021

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Summary of Contents for Thermo Scientific Orbitrap Exploris GC

  • Page 1 Orbitrap Exploris GC and Orbitrap Exploris GC 240 Mass Spectrometers Operating Manual 1R120631-0002 Revision A March 2021...
  • Page 3 Orbitrap Exploris GC and Orbitrap Exploris GC 240 Mass Spectrometers Operating Manual 1R120631-0002 Revision A March 2021...

  • Page 4: Legal Notices

    Thermo Fisher Scientific (Bremen) GmbH, Hanna-Kunath-Str. 11, 28199 Bremen, Germany Tel: +49(0)421 5493 0, Fax: +49(0)421 5493 396 Orbitrap, Thermo Scientific, TRACE, TriPlus, and Xcalibur are registered trademarks of Thermo Fisher Scientific Inc. in the United States. Fisher Scientific is a registered trademark of Fisher Scientific Co.

  • Page 5: Table Of Contents

    Vacuum System ............3-23 Forepump ..............3-24 Turbomolecular Pump..........3-25 Vent Valve ..............3-25 System Bakeout............3-25 Electronic Assemblies ........... 3-26 Cooling Fans..............3-26 Thermo Scientific Orbitrap Exploris GC and Orbitrap Exploris GC 240 Operating Manual (P/N 1R120631-0002, Revision A)
  • Page 6 Setting the System in Standby Condition....... 6-6 Shutting Down the System ..........6-7 Starting Up the System after a Shutdown....... 6-9 Checks for an Instrument that was vented....6-11 Orbitrap Exploris GC and Orbitrap Exploris GC 240 Operating Manual (P/N 1R120631-0002, Revision A) Thermo Scientific...
  • Page 7 Maintenance of the Ion Optics........8-47 Cleaning the Quadrupole.......... 8-47 Cleaning the Bent Flatapole ........8-52 Consumables..............8-59 Thermo Fisher Scientific Service ........8-60 Returning Parts ............8-60 Thermo Scientific Orbitrap Exploris GC and Orbitrap Exploris GC 240 Operating Manual (P/N 1R120631-0002, Revision A)
  • Page 8 Services to be Performed by Thermo Fisher Scientific Service Only ..........8-60 Chapter 9 Replaceable Parts..............9-1 Instrument Parts ............9-1 Appendix 10 Legal Documents..............10-1 Index..................I-1 Orbitrap Exploris GC and Orbitrap Exploris GC 240 Operating Manual (P/N 1R120631-0002, Revision A) Thermo Scientific...
  • Page 9 This table summarizes technical data of the Orbitrap Exploris GC and Orbitrap Exploris GC 240 systems. See the respective chapters of the manual for details and additional instrument properties. Technical Data for Orbitrap Exploris GC and Orbitrap Exploris GC 240 Systems (Sheet 1 of 2) Parameter Specification...
  • Page 10 Required for installation of systems with chemical ionization and for negative ion calibrations. While other CI gases can be used with the Orbitrap Exploris GC, only methane is required for CI installation. Orbitrap Exploris GC and Orbitrap Exploris GC 240 Operating Manual (P/N 1R120631-0002, Revision A)

  • Page 11: Using This Manual

    This instrument must be used as described in this manual. Any use of this instrument in a manner other than described here may result in instrument damage and/or operator injury. Thermo Scientific Orbitrap Exploris GC and Orbitrap Exploris GC 240 Operating Manual (P/N 1R120631-0002, Revision A)

  • Page 12: Typographical Conventions

    <F1> key. • Any button that you click on the screen is represented in bold face letters. For example, “click Close.” Orbitrap Exploris GC and Orbitrap Exploris GC 240 Operating Manual (P/N 1R120631-0002, Revision A) Thermo Scientific...

  • Page 13: Topic Headings

    The following headings are used to show the organization of topics in a chapter: Chapter Name Second Level Topics Third Level Topics Fourth Level Topics Thermo Scientific Orbitrap Exploris GC and Orbitrap Exploris GC 240 Operating Manual (P/N 1R120631-0002, Revision A)

  • Page 14: Reference Documentation

    Refer also to the user documentation that is provided by the manufacturers of third-party components: • Forepump • Turbomolecular pump • Data system computer and monitor • Safety data sheets Orbitrap Exploris GC and Orbitrap Exploris GC 240 Operating Manual (P/N 1R120631-0002, Revision A) Thermo Scientific...

  • Page 15: Contacting Us

    To suggest changes to this manual You are encouraged to report errors or omissions in the text or index. Send an email message to the Technical Editor at techpubs-austin@thermofisher.com. Thermo Scientific Orbitrap Exploris GC and Orbitrap Exploris GC 240 Operating Manual (P/N 1R120631-0002, Revision A)

  • Page 17: Scope Of Delivery

    Orbitrap Exploris GC and Orbitrap Exploris GC 240 mass spectrometer are available as PDF files on the data system computer. “Reference Documentation” page 1-4 for a list. Thermo Scientific Orbitrap Exploris GC Operating Manual and Orbitrap Exploris GC 240 (P/N 1R120631-0002, Revision A)

  • Page 19: Functional Description

    Orbitrap Analyzer page 3-20 • HCD Cell page 3-23 • Vacuum System page 3-23 • Electronic Assemblies page 3-26 • Cooling Fans page 3-26 Thermo Scientific Orbitrap Exploris GC and Orbitrap Exploris GC 240 Operating Manual (P/N 1R120631-0002, Revision A)

  • Page 20: General Description

    For a schematic view of the instrument layout, see Figure 3-11 page 3-16. Figure 3-1 shows a front view of the Orbitrap Exploris GC and Orbitrap Exploris GC 240 MS. Orbitrap Exploris GC and Orbitrap Exploris GC 240 Operating Manual (P/N 1R120631-0002, Revision A) Thermo Scientific...

  • Page 21: Operating Modes Of The Orbitrap Exploris Gc And Orbitrap Exploris Gc 240 Ms

    In MS/MS modes, ions are passed through the C-Trap into the HCD cell. The HCD cell adds a Higher Energy Collision Induced Dissociation capability to the instrument. In combination with the Thermo Scientific Orbitrap Exploris GC and Orbitrap Exploris GC 240 Operating Manual (P/N 1R120631-0002, Revision A)

  • Page 22: Performance Specifications

    One full cycle in < 1 sec (one full scan positive mode and one full scan negative mode at resolution setting of 60000) >5000 within a single scan Dynamic Range Orbitrap Exploris GC and Orbitrap Exploris GC 240 Operating Manual (P/N 1R120631-0002, Revision A) Thermo Scientific...

  • Page 23: Instrument Front Side

    Table 3-2 explains the function of the LEDs. Figure 3-2. System status LEDs Table 3-2. System status LEDs of the Orbitrap Exploris GC and Orbitrap Exploris GC 240 mass spectrometer Status Information Power Green Instrument is receiving power.
  • Page 24 Functional Description Instrument Front Side Table 3-2. System status LEDs of the Orbitrap Exploris GC and Orbitrap Exploris GC 240 mass spectrometer, continued Status Information Heaters Green Ion source heaters ± 4 °C of set values. Yellow flashing Ion source is not at set temperature.

  • Page 25: Left Instrument Side

    The HP nitrogen is also used to vent the vacuum manifold with the vent valve if the system is shut down. The collision gas (trapping gas) of the Thermo Scientific Orbitrap Exploris GC and Orbitrap Exploris GC 240 Operating Manual (P/N 1R120631-0002, Revision A)
  • Page 26 HCD cell next to the C-Trap. The nitrogen gas that leaks from the HCD cell is used for ion trapping and cooling in the C-Trap. Orbitrap Exploris GC and Orbitrap Exploris GC 240 Operating Manual (P/N 1R120631-0002, Revision A) Thermo Scientific...

  • Page 27: Right Instrument Side

    The reset button is located on the control panel. When you press the reset button, the instrument software is reloaded from the data system. Thermo Scientific Orbitrap Exploris GC and Orbitrap Exploris GC 240 Operating Manual (P/N 1R120631-0002, Revision A)

  • Page 28: Digital-In

    The mass spectrometer can record an analog signal between –10 V and +10 V from an external device with the mass spectrometer data. 3-10 Orbitrap Exploris GC and Orbitrap Exploris GC 240 Operating Manual (P/N 1R120631-0002, Revision A) Thermo Scientific...
  • Page 29 Installation Kit. See “User I/O Connections” page 5-23 specifications of the peripheral control input connection ports. Thermo Scientific Orbitrap Exploris GC and Orbitrap Exploris GC 240 Operating Manual (P/N 1R120631-0002, Revision A) 3-11...
  • Page 30 ON (|) position. Tip Power is to remain on. The mass spectrometer should remain on and pumping continuously for optimum performance. 3-12 Orbitrap Exploris GC and Orbitrap Exploris GC 240 Operating Manual (P/N 1R120631-0002, Revision A) Thermo Scientific...
  • Page 31 240 instrument is designed to operate at a nominal voltage of 208– 240 V AC, 50/60 Hz. See “Power Supply” page 5-14 for details. Thermo Scientific Orbitrap Exploris GC and Orbitrap Exploris GC 240 Operating Manual (P/N 1R120631-0002, Revision A) 3-13...

  • Page 32: Ion Optics

    Figure 3-9 provides images of the three available ion volumes. CI Ion Volume EI Ion Volume EI/CI Ion Volume Figure 3-9. Available Ion Sources 3-14 Orbitrap Exploris GC and Orbitrap Exploris GC 240 Operating Manual (P/N 1R120631-0002, Revision A) Thermo Scientific...
  • Page 33 The ion source cartridge is removable while the mass spectrometer is under vacuum. For removal and cleaning instructions see “EI/CI Source Maintenance” page 8-15. Thermo Scientific Orbitrap Exploris GC and Orbitrap Exploris GC 240 Operating Manual (P/N 1R120631-0002, Revision A) 3-15...
  • Page 34 Automatic Gain Control (AGC) of the Orbitrap mass analyzer. The assembly also includes a short transport RF multipole, which is the interface between the ICD and the C-Trap. 3-16 Orbitrap Exploris GC and Orbitrap Exploris GC 240 Operating Manual (P/N 1R120631-0002, Revision A) Thermo Scientific...
  • Page 35 RF voltage 180° out of phase – DC voltage Figure 3-12. Polarity of the RF voltages and DC voltages applied to the rods of the quadrupole mass filter Thermo Scientific Orbitrap Exploris GC and Orbitrap Exploris GC 240 Operating Manual (P/N 1R120631-0002, Revision A) 3-17...

  • Page 36: Curved Linear Trap

    On their way from the ion source to the Orbitrap analyzer, ions move through the gas-free RF transfer multipole into the gas-filled curved linear trap (C-Trap). See Figure 3-11 page 3-16. Ions that enter the 3-18 Orbitrap Exploris GC and Orbitrap Exploris GC 240 Operating Manual (P/N 1R120631-0002, Revision A) Thermo Scientific...
  • Page 37 These voltages may be later ramped up to squeeze ions into a shorter thread along this axis. Thermo Scientific Orbitrap Exploris GC and Orbitrap Exploris GC 240 Operating Manual (P/N 1R120631-0002, Revision A) 3-19...

  • Page 38: Orbitrap Analyzer

    The evolution of an ion packet during an increase of the electric field is shown schematically in Figure 3-15. When the injected ions approach the opposite electrode for the first time, the increased electric field 3-20 Orbitrap Exploris GC and Orbitrap Exploris GC 240 Operating Manual (P/N 1R120631-0002, Revision A) Thermo Scientific...

  • Page 39: Measuring Principle

    The outer electrode is split in half at z=0, allowing the ion image current in the axial direction to be collected. The image current on each Thermo Scientific Orbitrap Exploris GC and Orbitrap Exploris GC 240 Operating Manual (P/N 1R120631-0002, Revision A) 3-21...
  • Page 40 Moving from one half outer electrode to the other, this ring will induce opposite currents on these halves, thus creating a signal to be detected by differential amplification. 3-22 Orbitrap Exploris GC and Orbitrap Exploris GC 240 Operating Manual (P/N 1R120631-0002, Revision A) Thermo Scientific...

  • Page 41: Hcd Cell

    8E-10 mbar <1 mbar Vent Valve (N Forepump Figure 3-17. Schematic of vacuum system in Orbitrap Exploris GC and Orbitrap Exploris GC 240 MS Thermo Scientific Orbitrap Exploris GC and Orbitrap Exploris GC 240 Operating Manual (P/N 1R120631-0002, Revision A) 3-23...

  • Page 42: Forepump

    Tip The forepump automatically shuts off when the communication with the mass spectrometer via the pump controller cable is disconnected or the mass spectrometer is powered off at the circuit breaker. 3-24 Orbitrap Exploris GC and Orbitrap Exploris GC 240 Operating Manual (P/N 1R120631-0002, Revision A) Thermo Scientific...

  • Page 43: Turbomolecular Pump

    These contaminations must be removed by heating the vacuum system: a system bakeout. See “Baking Out the System” page 8-11 for instructions on performing a system bakeout. Thermo Scientific Orbitrap Exploris GC and Orbitrap Exploris GC 240 Operating Manual (P/N 1R120631-0002, Revision A) 3-25...

  • Page 44: Electronic Assemblies

    Fan Filters” page 8-13. In addition to the fans described in this topic, various printed circuit boards are equipped with individual fans. 3-26 Orbitrap Exploris GC and Orbitrap Exploris GC 240 Operating Manual (P/N 1R120631-0002, Revision A) Thermo Scientific...
  • Page 45 4-3 • Intended Use page 4-5 • Electric Safety Precautions page 4-8 • In Case of Emergency page 4-9 • Residual Hazards page 4-11 Thermo Scientific Orbitrap Exploris GC and Orbitrap Exploris GC 240 Operating Manual (P/N 1R120631-0002, Revision A)

  • Page 46: Safety

    Be sure to read and comply with all precautions described in this manual. System configurations and specifications in this manual supersede all previous information received by the purchaser. Orbitrap Exploris GC and Orbitrap Exploris GC 240 Operating Manual (P/N 1R120631-0002, Revision A) Thermo Scientific...

  • Page 47: Safety Symbols On The Instrument

    Can cause back injury during transportation. strain and back injury. See “Moving the See manual for instructions. Instrument” page 5-5 for instructions. Thermo Scientific Orbitrap Exploris GC and Orbitrap Exploris GC 240 Operating Manual (P/N 1R120631-0002, Revision A)

  • Page 48: Rating Plate

    See Figure 4-1. It contains the serial number, which is important in any type of communication with Thermo Fisher Scientific. Figure 4-1. Rating plate Orbitrap Exploris GC and Orbitrap Exploris GC 240 Operating Manual (P/N 1R120631-0002, Revision A) Thermo Scientific...

  • Page 49: Intended Use

    The instrument is designed to operate in a controlled electromagnetic environment. Do not use radio frequency transmitters, such as mobile phones, in close proximity to the instrument. Thermo Scientific Orbitrap Exploris GC and Orbitrap Exploris GC 240 Operating Manual (P/N 1R120631-0002, Revision A)

  • Page 50: Qualification Of The Personnel

    Use only the forepump oil that is indicated on the name plate and pump. If other oils are used, the manufacturers reject all responsibility should any trouble occur. Orbitrap Exploris GC and Orbitrap Exploris GC 240 Operating Manual (P/N 1R120631-0002, Revision A) Thermo Scientific...
  • Page 51 Typically, mixtures of organic solvents are applied. Organic solvents can be isooctane, hexane, or acetone. • Optional chemical ionization reagent gases including: methane, isobutane, and ammonia. Thermo Scientific Orbitrap Exploris GC and Orbitrap Exploris GC 240 Operating Manual (P/N 1R120631-0002, Revision A)

  • Page 52: Electric Safety Precautions

    Leaking liquids might get into contact with electronic components and cause a short circuit. Orbitrap Exploris GC and Orbitrap Exploris GC 240 Operating Manual (P/N 1R120631-0002, Revision A) Thermo Scientific...

  • Page 53: In Case Of Emergency

    2. The forepump is only switched off with the relay control cable. To disconnect the forepump from its electric power supply, unplug the power cord. Thermo Scientific Orbitrap Exploris GC and Orbitrap Exploris GC 240 Operating Manual (P/N 1R120631-0002, Revision A)
  • Page 54 Tip The pump automatically shuts down when the communication with the mass spectrometer stops. 3. Turn off the computer with its On/Off switch. 4-10 Orbitrap Exploris GC and Orbitrap Exploris GC 240 Operating Manual (P/N 1R120631-0002, Revision A) Thermo Scientific...

  • Page 55: Residual Hazards

    Hot ion source parts might ignite combustible material. Keep combustible materials away from the ion source mount. Thermo Scientific Orbitrap Exploris GC and Orbitrap Exploris GC 240 Operating Manual (P/N 1R120631-0002, Revision A) 4-11...

  • Page 56: Personal Protective Equipment

    Thermo Fisher Scientific recommends white nitrile clean room gloves from Fisher Scientific Unity Lab Services. For handling hot objects, gloves made of heat-resistant materials (for example, leather) should be available. 4-12 Orbitrap Exploris GC and Orbitrap Exploris GC 240 Operating Manual (P/N 1R120631-0002, Revision A) Thermo Scientific...

  • Page 57: Installation

    Contents • Placing the Instrument page 5-2 • Laboratory Conditions page 5-14 • Setting Up Instrument Hardware and Adjusting System Parameters page 5-22 Thermo Scientific Orbitrap Exploris GC Operating Manual and Orbitrap Exploris GC 240 (P/N 1R120631-0002, Revision A)

  • Page 58: Placing The Instrument

    (41 in.). There must also be 105 mm (4 in.) between the system and the wall. Figure 5-1 shows a schematic view of the instrument with important instrument dimensions. Orbitrap Exploris GC Operating Manual and Orbitrap Exploris GC 240 (P/N 1R120631-0002, Revision A) Thermo Scientific...

  • Page 59: Front View

    To set up a typical GC/MS system, Thermo Fisher Scientific recommends that you have a minimum of two workbenches. Table 5-1 lists the recommended minimum surface dimensions for each workbench. Thermo Scientific Orbitrap Exploris GC Operating Manual and Orbitrap Exploris GC 240 (P/N 1R120631-0002, Revision A)
  • Page 60 Do not block the ventilation slots of the mass spectrometer. Items might fall behind the instrument, inhibit airflow, and cause the system to overheat. Orbitrap Exploris GC Operating Manual and Orbitrap Exploris GC 240 (P/N 1R120631-0002, Revision A) Thermo Scientific...

  • Page 61: Moving The Instrument

    The instructions that follow assume that the instrument has been moved to the installation site with a pallet jack and the top cover of the transport crate has been removed. Thermo Scientific Orbitrap Exploris GC Operating Manual and Orbitrap Exploris GC 240 (P/N 1R120631-0002, Revision A)
  • Page 62 The front row of the support points below the instrument consists of synthetic material that has a high frictional resistance and should keep the MS safely in position. Orbitrap Exploris GC Operating Manual and Orbitrap Exploris GC 240 (P/N 1R120631-0002, Revision A) Thermo Scientific...

  • Page 63: Placing The Gc

    Figure 5-4. Figure 5-4. Removing the GC panel 5. Lift up on the center brake to take off the GC brakes. See Figure 5-5. Thermo Scientific Orbitrap Exploris GC Operating Manual and Orbitrap Exploris GC 240 (P/N 1R120631-0002, Revision A)
  • Page 64 Figure 5-6. Securing the GC to the MS with the Alignment Pin 8. If needed, level the GC riser by adjusting the four alignment pins on each corner of the riser base. See Figure 5-7. Orbitrap Exploris GC Operating Manual and Orbitrap Exploris GC 240 (P/N 1R120631-0002, Revision A) Thermo Scientific...
  • Page 65 10. Insert the GC start cable in the Peripheral A slot on the Control panel on the left side of the MS. See Figure 5-9 Thermo Scientific Orbitrap Exploris GC Operating Manual and Orbitrap Exploris GC 240 (P/N 1R120631-0002, Revision A)
  • Page 66 Figure 5-10. Clip location on back GC bracket 12. Attach the other cables correctly to the back of the GC. See Figure 5-11. 5-10 Orbitrap Exploris GC Operating Manual and Orbitrap Exploris GC 240 (P/N 1R120631-0002, Revision A) Thermo Scientific...

  • Page 67: Placing The Forepump

    Heavy Object. Because of its weight of about 24 kg, the forepump might move uncontrollably and cause injuries. Wear steel-reinforced safety shoes when you move the pump during the installation. Thermo Scientific Orbitrap Exploris GC Operating Manual and Orbitrap Exploris GC 240 (P/N 1R120631-0002, Revision A) 5-11...
  • Page 68 Pump Voltage Figure 5-13. Confirming the Pump Voltage 5-12 Orbitrap Exploris GC Operating Manual and Orbitrap Exploris GC 240 (P/N 1R120631-0002, Revision A) Thermo Scientific...
  • Page 69 Note that power supplies that are not within 10% of the pump labeled voltage may damage the pump. See page 5-14 specifications of the power supply. Thermo Scientific Orbitrap Exploris GC Operating Manual and Orbitrap Exploris GC 240 (P/N 1R120631-0002, Revision A) 5-13...

  • Page 70: Laboratory Conditions

    IEC 60320 C19 socket on the GC. The other cords fit into standard IEC 60320 C13 sockets on the mass spectrometer and the other system components. 5-14 Orbitrap Exploris GC Operating Manual and Orbitrap Exploris GC 240 (P/N 1R120631-0002, Revision A) Thermo Scientific...
  • Page 71 Four outlets for secondary consumers are available on the MS. The total maximum current of the secondary consumers must not exceed 3 A. Thermo Scientific Orbitrap Exploris GC Operating Manual and Orbitrap Exploris GC 240 (P/N 1R120631-0002, Revision A) 5-15...

  • Page 72: Gas Supply

    Pressure Purity Tubing OD Maximum Flow Consumption C-trap and HCD gas 99.999% 1/16 in. ~50 L/day 0.6 ± 0.05 MPa 0.04 L/min mandatory 5-16 Orbitrap Exploris GC Operating Manual and Orbitrap Exploris GC 240 (P/N 1R120631-0002, Revision A) Thermo Scientific...
  • Page 73 Connect the 6 mm hose that comes from the high-purity nitrogen source to the top nitrogen inlet of the instrument. Thermo Scientific Orbitrap Exploris GC Operating Manual and Orbitrap Exploris GC 240 (P/N 1R120631-0002, Revision A) 5-17...

  • Page 74: Connecting The Orbitrap Exploris Gc And Orbitrap Exploris Gc 240 Ci Gas Supply

    3. Attach the CI reagent gas to either port A or port B. If connecting to port B, use the small wrench (P/N 1R176360-0208) provided with your system. Figure 5-17. Connecting the CI gas supply 5-18 Orbitrap Exploris GC Operating Manual and Orbitrap Exploris GC 240 (P/N 1R120631-0002, Revision A) Thermo Scientific...

  • Page 75: Laboratory Temperature

    Laboratory Temperature The mass spectrometer is designed to operate at a laboratory room temperature between 18 and 27 °C (64 and 81 °F). Thermo Scientific Orbitrap Exploris GC Operating Manual and Orbitrap Exploris GC 240 (P/N 1R120631-0002, Revision A) 5-19...

  • Page 76: Humidity

    The connection of the forepump to an adequate exhaust system is mandatory! 5-20 Orbitrap Exploris GC Operating Manual and Orbitrap Exploris GC 240 (P/N 1R120631-0002, Revision A) Thermo Scientific...

  • Page 77: Vibration

    The A-weighted emission sound pressure level created by the Orbitrap Exploris GC and Orbitrap Exploris GC 240 mass spectrometer at work stations does not exceed 70 dB(A). Thermo Scientific Orbitrap Exploris GC Operating Manual and Orbitrap Exploris GC 240 (P/N 1R120631-0002, Revision A) 5-21...

  • Page 78: Setting Up Instrument Hardware And Adjusting System Parameters

    For detailed information about changing the instrument parameters and developing experiments for the instrument, refer to the Orbitrap Exploris GC Software Manual or the Tune Help. 5-22 Orbitrap Exploris GC Operating Manual and Orbitrap Exploris GC 240 (P/N 1R120631-0002, Revision A) Thermo Scientific...

  • Page 79: User I/O Connections

    Figure 5-19. Output equivalent schematic Table 5-5. Output circuit specifications < 1 W Contact closed Contact open > 1 GW (typically) Current = 0.6 A Thermo Scientific Orbitrap Exploris GC Operating Manual and Orbitrap Exploris GC 240 (P/N 1R120631-0002, Revision A) 5-23...

  • Page 80: Input Specifications

    Figure 5-21 shows the circuit diagram and Table 5-7 lists the specifications of the peripheral control output. Figure 5-21. Analog input equivalent schematic 5-24 Orbitrap Exploris GC Operating Manual and Orbitrap Exploris GC 240 (P/N 1R120631-0002, Revision A) Thermo Scientific...

  • Page 81: Troubleshooting Instrument Connection

    Other devices such as the GC and auto ampler must not have IP addresses that begin with 172.16.0.# and subnet mask of 255.255.255.0. Thermo Scientific Orbitrap Exploris GC Operating Manual and Orbitrap Exploris GC 240 (P/N 1R120631-0002, Revision A) 5-25...

  • Page 83: Operation

    6-7 • Starting Up the System after a Shutdown page 6-9 • Resetting the System page 6-12 • Installing the Column page 6-14 Thermo Scientific Orbitrap Exploris GC and Orbitrap Exploris GC 240 Operating Manual (P/N 1R120631-0002, Revision A)

  • Page 84: Safety Guidelines For Operation

    To ensure safety and proper cooling, always operate the MS with its covers in place. This is also necessary to comply with product safety and electromagnetic interference regulations. Orbitrap Exploris GC and Orbitrap Exploris GC 240 Operating Manual (P/N 1R120631-0002, Revision A) Thermo Scientific...

  • Page 85: Before Operating The Mass Spectrometer

    0.6 ± 0.005 MPa (87 ± 7 psi). If necessary, adjust the pressure with the tank pressure regulator. Thermo Scientific Orbitrap Exploris GC and Orbitrap Exploris GC 240 Operating Manual (P/N 1R120631-0002, Revision A)

  • Page 86: Checking The System Vacuum Levels

    First, copy files to the backup medium. After you have copied the files, you can delete them from the hard disk. Orbitrap Exploris GC and Orbitrap Exploris GC 240 Operating Manual (P/N 1R120631-0002, Revision A) Thermo Scientific...

  • Page 87: Checking The Mass Accuracy Of The Instrument

    They are independent of the sample. Checking the CI Reagent Gas If performing chemical ionization, make sure the gas supply is on and the regulator displays adequate pressure. Thermo Scientific Orbitrap Exploris GC and Orbitrap Exploris GC 240 Operating Manual (P/N 1R120631-0002, Revision A)

  • Page 88: Setting The System In Standby Condition

    5. Keep the data system power On. 6. Keep the Orbitrap Exploris GC and Orbitrap Exploris GC 240 main power circuit breaker switch in the On position. Orbitrap Exploris GC and Orbitrap Exploris GC 240 Operating Manual (P/N 1R120631-0002, Revision A) Thermo Scientific...

  • Page 89: Shutting Down The System

    GC, autosampler, or the data system. In this case, the shutdown Thermo Scientific Orbitrap Exploris GC and Orbitrap Exploris GC 240 Operating Manual (P/N 1R120631-0002, Revision A)
  • Page 90 Keeping on the nitrogen flow prevents humidity from contaminating the vacuum system of the mass spectrometer. You may however switch off the nitrogen if your supply is limited. Orbitrap Exploris GC and Orbitrap Exploris GC 240 Operating Manual (P/N 1R120631-0002, Revision A) Thermo Scientific...

  • Page 91: Starting Up The System After A Shutdown

    TMP (for example, 80% after 15 minutes). Check glass cover if system shuts off during startup, as it may have broken its seal when the system was last vented. Thermo Scientific Orbitrap Exploris GC and Orbitrap Exploris GC 240 Operating Manual (P/N 1R120631-0002, Revision A)
  • Page 92 FV pressure is < 1 mbar. Compare the values of the other parameters in the instrument status window with values that you recorded previously. 6-10 Orbitrap Exploris GC and Orbitrap Exploris GC 240 Operating Manual (P/N 1R120631-0002, Revision A) Thermo Scientific...

  • Page 93: Checks For An Instrument That Was Vented

    The check includes these items: • Leak check • EI/CI source tune • Mass accuracy test • System calibration checks. Refer to the instrument Help for instructions. Thermo Scientific Orbitrap Exploris GC and Orbitrap Exploris GC 240 Operating Manual (P/N 1R120631-0002, Revision A) 6-11...

  • Page 94: Resetting The System

    Software for the operation of the instrument is then transferred from the data system to the instrument. 6-12 Orbitrap Exploris GC and Orbitrap Exploris GC 240 Operating Manual (P/N 1R120631-0002, Revision A) Thermo Scientific...
  • Page 95 1. Put the electronics switch into the Service Mode position. 2. Wait for about ten seconds. 3. Put the electronics service switch back into the Operating Mode position. Thermo Scientific Orbitrap Exploris GC and Orbitrap Exploris GC 240 Operating Manual (P/N 1R120631-0002, Revision A) 6-13...

  • Page 96: Installing The Column

    80 °C (176 °F). Otherwise, it will melt and damage the instrument. 3. Repeat the leak check until no leaks are indicated. 4. Calibrate the carrier gas flow (column evaluation): 6-14 Orbitrap Exploris GC and Orbitrap Exploris GC 240 Operating Manual (P/N 1R120631-0002, Revision A) Thermo Scientific...
  • Page 97 0.1 units of the previous stored value, check for a leak or broken column using the leak detector. The K-factor is a measured resistance for the column. A K-factor that is too low Thermo Scientific Orbitrap Exploris GC and Orbitrap Exploris GC 240 Operating Manual (P/N 1R120631-0002, Revision A) 6-15...

  • Page 98: Nut And Ferrule Combinations

    To install the column in the Orbitrap Exploris GC and Orbitrap Exploris GC 240 system 1. In Tune, place the instrument in the Standby state. 6-16 Orbitrap Exploris GC and Orbitrap Exploris GC 240 Operating Manual (P/N 1R120631-0002, Revision A) Thermo Scientific...
  • Page 99 4. Place the ion source cartridge on the source holder and set aside. Figure 6-3. Storing the Ion Source Cartridge in the Source Holder Thermo Scientific Orbitrap Exploris GC and Orbitrap Exploris GC 240 Operating Manual (P/N 1R120631-0002, Revision A) 6-17...
  • Page 100 6. Attach the source exchange tool to the source plug in the source plug holder. Figure 6-5. Attaching the Source Plug to the Source Exchange Tool 6-18 Orbitrap Exploris GC and Orbitrap Exploris GC 240 Operating Manual (P/N 1R120631-0002, Revision A) Thermo Scientific...
  • Page 101 Confirm that the source removal tool is properly engaged in the VPI. b. Press the blue Evacuate button on the front of the instrument. Thermo Scientific Orbitrap Exploris GC and Orbitrap Exploris GC 240 Operating Manual (P/N 1R120631-0002, Revision A) 6-19...
  • Page 102 When you reach this line, the tool is all the way in and the source plug is securely placed in the instrument. 6-20 Orbitrap Exploris GC and Orbitrap Exploris GC 240 Operating Manual (P/N 1R120631-0002, Revision A) Thermo Scientific...
  • Page 103 18. Wipe the column again with a tissue soaked in methanol. Flat on the Transferline Nut Spring Loaded Transfer Ferrule Line Nut Figure 6-9. Transfer line nut and ferrule orientation Thermo Scientific Orbitrap Exploris GC and Orbitrap Exploris GC 240 Operating Manual (P/N 1R120631-0002, Revision A) 6-21...
  • Page 104 Remove the source plug with the insertion/removal tool. 28. Ensure the column and nut are correctly installed in the MS transfer line. 6-22 Orbitrap Exploris GC and Orbitrap Exploris GC 240 Operating Manual (P/N 1R120631-0002, Revision A) Thermo Scientific...
  • Page 105 39. On the GC, set the Oven to On. 40. On the GC, in the Auxiliary Temperature Control, set Transfer Line 1 and Transfer Line 2 to On. Thermo Scientific Orbitrap Exploris GC and Orbitrap Exploris GC 240 Operating Manual (P/N 1R120631-0002, Revision A) 6-23...
  • Page 106 43. Confirm there are no leaks before beginning any tuning or analyses. 6-24 Orbitrap Exploris GC and Orbitrap Exploris GC 240 Operating Manual (P/N 1R120631-0002, Revision A) Thermo Scientific...

  • Page 107: Troubleshooting

    Failure of UHV Chamber Heating Control page 7-7 • Turbomolecular Pump is not Running page 7-7 • Failure of Source Heaters / Transfer Line Heaters page 7-8 Thermo Scientific Orbitrap Exploris GC and Orbitrap Exploris GC 240 Operating Manual (P/N 1R120631-0002, Revision A)

  • Page 108: Safety Guidelines For Troubleshooting

    Do not try to repair or replace any component of the system that is not described in this manual without the assistance of your Thermo Fisher Scientific field service engineer. Orbitrap Exploris GC and Orbitrap Exploris GC 240 Operating Manual (P/N 1R120631-0002, Revision A) Thermo Scientific...

  • Page 109: Fault Table

    TMP is switched off because of overheating. page 7-7 running TMP is switched off because forepump has switched off or because of forevacuum leak or forevacuum failure. Thermo Scientific Orbitrap Exploris GC and Orbitrap Exploris GC 240 Operating Manual (P/N 1R120631-0002, Revision A)

  • Page 110: Main Power Failure

    (UPS). If main power failures occur frequently while the system is not attended (for example, in the night), Thermo Fisher Scientific recommends that you install a power fail detector. Orbitrap Exploris GC and Orbitrap Exploris GC 240 Operating Manual (P/N 1R120631-0002, Revision A) Thermo Scientific...

  • Page 111: Vacuum Leak

    To fix an air leak 1. Shut down the system. See page 6-7. 2. Make a visual inspection of the vacuum system and vacuum lines for leaks. Thermo Scientific Orbitrap Exploris GC and Orbitrap Exploris GC 240 Operating Manual (P/N 1R120631-0002, Revision A)
  • Page 112 If you cannot find the location of the leak or fix the leak yourself, contact your Thermo Fisher Scientific field service engineer. Orbitrap Exploris GC and Orbitrap Exploris GC 240 Operating Manual (P/N 1R120631-0002, Revision A) Thermo Scientific...

  • Page 113: Failure Of Uhv Chamber Heating Control

    Verify there is an appropriate amount of oil present in the forepump. Also verify all electrical connections are present on the forepump and relay. See “Connecting the Forepump” page 5-12. Thermo Scientific Orbitrap Exploris GC and Orbitrap Exploris GC 240 Operating Manual (P/N 1R120631-0002, Revision A)

  • Page 114: Failure Of Source Heaters / Transfer Line Heaters

    6-7. To prevent permanent damage to components of the mass spectrometer, Thermo Fisher Scientific recommends that you call a Thermo Fisher Scientific field service engineer. Orbitrap Exploris GC and Orbitrap Exploris GC 240 Operating Manual (P/N 1R120631-0002, Revision A) Thermo Scientific...

  • Page 115: Maintenance

    EI/CI Source Maintenance page 8-15 • Maintenance of the Ion Optics page 8-47 • Consumables page 8-59 • Thermo Fisher Scientific Service page 8-60 Thermo Scientific Orbitrap Exploris GC and Orbitrap Exploris GC 240 Operating Manual (P/N 1R120631-0002, Revision A)

  • Page 116: Safety Guidelines For Maintenance

    Orbitrap Exploris GC and Orbitrap Exploris GC 240 Operating Manual (P/N 1R120631-0002, Revision A) Thermo Scientific...

  • Page 117: Guidelines For Maintenance

    Do not use tools, such as metal pliers, that might scratch these components. Thermo Scientific Orbitrap Exploris GC and Orbitrap Exploris GC 240 Operating Manual (P/N 1R120631-0002, Revision A)

  • Page 118: Inspection- And Servicing Plan

    Every 3000 h of operation. Replace exhaust filter If oil mist appears at exhaust or annually. Check anti-suckback valve Annually Clean fan cover Annually Orbitrap Exploris GC and Orbitrap Exploris GC 240 Operating Manual (P/N 1R120631-0002, Revision A) Thermo Scientific...
  • Page 119 Depends on the types and amounts of samples and solvents that are introduced into the instrument. For low flow applications, purging the forepump is rarely necessary. Thermo Scientific Orbitrap Exploris GC and Orbitrap Exploris GC 240 Operating Manual (P/N 1R120631-0002, Revision A)

  • Page 120: Cleaning The Surface Of The Instrument

    NOTICE These leak detectors will not detect nitrogen levels. ▲ Orbitrap Exploris GC and Orbitrap Exploris GC 240 Operating Manual (P/N 1R120631-0002, Revision A) Thermo Scientific...

  • Page 121: Checking The Condition Of Tubings And Hoses

    2. Visually inspect all tubing for leaks or signs of deterioration. If you detect a leak or other damage to any tubing or hose, then you must replace it. Thermo Scientific Orbitrap Exploris GC and Orbitrap Exploris GC 240 Operating Manual (P/N 1R120631-0002, Revision A)

  • Page 122: Tools And Supplies

    3 and 4 mm Allen wrenches Performance Maintenance Starter Kit (sold separately) (Optional) Toothbrush, soft (or similar tool) (Optional) Tweezers, plastic (or similar tool) Orbitrap Exploris GC and Orbitrap Exploris GC 240 Operating Manual (P/N 1R120631-0002, Revision A) Thermo Scientific...
  • Page 123 Nylon/polypropylene wipes Saturated lint-free wipes, 70:30 isopropanol:water Polishing paste (for example, 1 μm grain size diamond paste) MICRO-MESH (for example, 6000 and 12000 grit) Thermo Scientific Orbitrap Exploris GC and Orbitrap Exploris GC 240 Operating Manual (P/N 1R120631-0002, Revision A)

  • Page 124: Maintaining The Vacuum System

    Forepump oil and exhaust filters are available from Thermo Fisher Scientific. If you wish to order other spare parts, contact the pump manufacturer. 8-10 Orbitrap Exploris GC and Orbitrap Exploris GC 240 Operating Manual (P/N 1R120631-0002, Revision A) Thermo Scientific...

  • Page 125: Maintenance Of The Turbomolecular Pump

    1. Click the Diagnostics icon ( ), and then choose System > Bake Vacuum Chamber. 2. Click Start. 3. In the Tune window, do the following: Thermo Scientific Orbitrap Exploris GC and Orbitrap Exploris GC 240 Operating Manual (P/N 1R120631-0002, Revision A) 8-11...
  • Page 126 Touching hot parts of the instrument immediately after a bakeout might cause burns. Let the instrument cool for at least three hours before you start to operate it again. 8-12 Orbitrap Exploris GC and Orbitrap Exploris GC 240 Operating Manual (P/N 1R120631-0002, Revision A) Thermo Scientific...

  • Page 127: Maintenance Of The Fan Filters

    1. Each fan filter bracket is plugged into the instrument frame. Pull the fan filter assemblies away from the frame to remove them. See Figure 8-1 Figure 8-2. Figure 8-2. Removing a fan filter bracket Thermo Scientific Orbitrap Exploris GC and Orbitrap Exploris GC 240 Operating Manual (P/N 1R120631-0002, Revision A) 8-13...
  • Page 128 5. Squeeze the water from the fan filters and let them air dry. 6. Reinstall the fan filters in the fan filter brackets. 7. Reinstall the filter brackets 8-14 Orbitrap Exploris GC and Orbitrap Exploris GC 240 Operating Manual (P/N 1R120631-0002, Revision A) Thermo Scientific...

  • Page 129: Ei/Ci Source Maintenance

    Evacuate button to remove any air inside the vacuum interlock. ▲ Vacuum Interlock Knob Evacuate Button Figure 8-3. Locating the Vacuum Interlock Knob and Evacuate Button Thermo Scientific Orbitrap Exploris GC and Orbitrap Exploris GC 240 Operating Manual (P/N 1R120631-0002, Revision A) 8-15...
  • Page 130 With your hand around the stainless steel barrel, twist the tool until the alignment groove at the end of the barrel aligns with 8-16 Orbitrap Exploris GC and Orbitrap Exploris GC 240 Operating Manual (P/N 1R120631-0002, Revision A) Thermo Scientific...
  • Page 131 Twist and push the stainless steel barrel to the right until it clicks into place under the screw at the top of the slot. Figure 8-6. Twisting the Tool into Place Thermo Scientific Orbitrap Exploris GC and Orbitrap Exploris GC 240 Operating Manual (P/N 1R120631-0002, Revision A) 8-17...
  • Page 132 6. Twist, then loosen the top part of the vacuum interlock handle to allow the entire handle to swing up and down. This handle controls the interior ball valve, which seals the vacuum chamber. 8-18 Orbitrap Exploris GC and Orbitrap Exploris GC 240 Operating Manual (P/N 1R120631-0002, Revision A) Thermo Scientific...
  • Page 133 10. Once the tool is all the way in (when the groove at the end of the barrel is covered by the black handle) twist the handle to the left to Thermo Scientific Orbitrap Exploris GC and Orbitrap Exploris GC 240 Operating Manual (P/N 1R120631-0002, Revision A) 8-19...
  • Page 134 (vibrations) of the handle to the left and right quickly. See Figure 8-9. Figure 8-9. Pulling the Tool Down the Left Track 8-20 Orbitrap Exploris GC and Orbitrap Exploris GC 240 Operating Manual (P/N 1R120631-0002, Revision A) Thermo Scientific...
  • Page 135 13. Pull the vacuum interlock handle down to close the interior ball valve. See Figure 8-11. Figure 8-11. Pulling Down the Vacuum Interlock Handle Thermo Scientific Orbitrap Exploris GC and Orbitrap Exploris GC 240 Operating Manual (P/N 1R120631-0002, Revision A) 8-21...
  • Page 136 16. Remove the tool from the instrument. See Figure 8-12. Figure 8-12. Removing the Tool from the Instrument 8-22 Orbitrap Exploris GC and Orbitrap Exploris GC 240 Operating Manual (P/N 1R120631-0002, Revision A) Thermo Scientific...
  • Page 137 Cartridge Figure 8-13. Exposing the Ion Source Cartridge 19. Invert the source exchange tool so that the barrel is pointed toward the floor. Thermo Scientific Orbitrap Exploris GC and Orbitrap Exploris GC 240 Operating Manual (P/N 1R120631-0002, Revision A) 8-23...
  • Page 138 The repeller locking nut is now loose on the repeller spring. Be careful not to tip the source or the components will fall out. 8-24 Orbitrap Exploris GC and Orbitrap Exploris GC 240 Operating Manual (P/N 1R120631-0002, Revision A) Thermo Scientific...
  • Page 139 For this reason, clean room gloves are strongly recommended when handling the ion source cartridge. We recommend Cardinal Health CP100 Nitrile Cleanroom Gloves. Thermo Scientific Orbitrap Exploris GC and Orbitrap Exploris GC 240 Operating Manual (P/N 1R120631-0002, Revision A) 8-25...
  • Page 140 Set it aside for now. 2. Insert the ion cartridge sleeve into the source holder. Figure 8-17. Inserting the Sleeve into the Source Holder 8-26 Orbitrap Exploris GC and Orbitrap Exploris GC 240 Operating Manual (P/N 1R120631-0002, Revision A) Thermo Scientific...
  • Page 141 It should fit snugly and sit evenly on top of lens 3/RF lens. Small Hole of Lens 2 Figure 8-19. Inserting Lens 2 into the Source Sleeve Thermo Scientific Orbitrap Exploris GC and Orbitrap Exploris GC 240 Operating Manual (P/N 1R120631-0002, Revision A) 8-27...
  • Page 142 1. You may need to rotate lens 1 slightly to make the ion volume fit correctly. Handles Fit Ion Volume Here Handles Lens 1 Gap Figure 8-21. Inserting the Ion Volume into the Source Sleeve 8-28 Orbitrap Exploris GC and Orbitrap Exploris GC 240 Operating Manual (P/N 1R120631-0002, Revision A) Thermo Scientific...
  • Page 143 9. Insert the large flat end of the repeller so that it rests on top of the ion volume. Large Flat End of Repeller Figure 8-22. Inserting the Repeller Thermo Scientific Orbitrap Exploris GC and Orbitrap Exploris GC 240 Operating Manual (P/N 1R120631-0002, Revision A) 8-29...
  • Page 144 It can be stretched to rejuvenate the force, but if it is damaged, it must be replaced. 8-30 Orbitrap Exploris GC and Orbitrap Exploris GC 240 Operating Manual (P/N 1R120631-0002, Revision A) Thermo Scientific...

  • Page 145: Reinserting The Ion Source Cartridge

    Otherwise, you may have to stop and clean the components again. Thermo Scientific Orbitrap Exploris GC and Orbitrap Exploris GC 240 Operating Manual (P/N 1R120631-0002, Revision A) 8-31...
  • Page 146 4. Push the ion source cartridge up into the barrel of the tool and twist it until the engraved lines are aligned. The ion source cartridge should easily slide into place with very little force. 8-32 Orbitrap Exploris GC and Orbitrap Exploris GC 240 Operating Manual (P/N 1R120631-0002, Revision A) Thermo Scientific...
  • Page 147 8. When the barrel can go no further, twist the handle to the left to lock it into position. Thermo Scientific Orbitrap Exploris GC and Orbitrap Exploris GC 240 Operating Manual (P/N 1R120631-0002, Revision A) 8-33...
  • Page 148 Be sure the black handle remains in the locked position. Evacuate Button Figure 8-27. Evacuating the Instrument 8-34 Orbitrap Exploris GC and Orbitrap Exploris GC 240 Operating Manual (P/N 1R120631-0002, Revision A) Thermo Scientific...
  • Page 149 You may notice Thermo Scientific Orbitrap Exploris GC and Orbitrap Exploris GC 240 Operating Manual (P/N 1R120631-0002, Revision A) 8-35...
  • Page 150 See Figure 8-29. Figure 8-29. Pulling the Tool Down the Right Track 8-36 Orbitrap Exploris GC and Orbitrap Exploris GC 240 Operating Manual (P/N 1R120631-0002, Revision A) Thermo Scientific...
  • Page 151 19. For optimal performance, wait at least 30 minutes for the ion source to heat up to the same temperature as the inside of the instrument. Otherwise, the masses or intensities may drift during operation. Thermo Scientific Orbitrap Exploris GC and Orbitrap Exploris GC 240 Operating Manual (P/N 1R120631-0002, Revision A) 8-37...

  • Page 152: Cleaning The Orbitrap Exploris Gc And Orbitrap Exploris Gc 240 Ion Source Cartridge And Durable Components

    • Cotton swab with wood handle • Razor blade • Ultrasonic cleaner CAUTION MATERIAL AND EYE HAZARD Wear impermeable laboratory gloves and eye protection when cleaning components. 8-38 Orbitrap Exploris GC and Orbitrap Exploris GC 240 Operating Manual (P/N 1R120631-0002, Revision A) Thermo Scientific...
  • Page 153 If you are cleaning the CI ion volume, use a razor blade to sharpen the wooden end of a wooden cotton swab to a 45° angle. Thermo Scientific Orbitrap Exploris GC and Orbitrap Exploris GC 240 Operating Manual (P/N 1R120631-0002, Revision A) 8-39...
  • Page 154 Rinse the components with tap water to remove the detergent. 4. Sonicate the components in deionized water. a. Use forceps to place the components in a beaker of deionized water. 8-40 Orbitrap Exploris GC and Orbitrap Exploris GC 240 Operating Manual (P/N 1R120631-0002, Revision A) Thermo Scientific...
  • Page 155 7. Wearing gloves, blow clean, dry gas on the components to remove the acetone. Acetone should not be allowed to dry on the part. It will leave a residue that may affect instrument performance. Thermo Scientific Orbitrap Exploris GC and Orbitrap Exploris GC 240 Operating Manual (P/N 1R120631-0002, Revision A) 8-41...

  • Page 156: Spectrometer

    2. The calibration reservoir is located under the manifold. Twist the calibrant reservoir cover counter-clockwise and remove it from the calibration gas controller. Calibrant reservoir Figure 8-32. Locating the Calibrant Reservoir 8-42 Orbitrap Exploris GC and Orbitrap Exploris GC 240 Operating Manual (P/N 1R120631-0002, Revision A) Thermo Scientific...

  • Page 157: Replacing A Dual Filament In The Orbitrap

    5. Reattach the cover to the calibration gas controller. 6. Close the front door of the instrument. Replacing a Dual Filament in the Orbitrap Exploris GC and Orbitrap Exploris GC 240 Mass Spectrometer The number of ions produced in the ion source is proportional to the filament emission current.
  • Page 158 For this reason, clean room gloves are strongly recommended when touching components inside the vacuum manifold. We recommend Cardinal Health CP100 Nitrile Cleanroom Gloves. 8-44 Orbitrap Exploris GC and Orbitrap Exploris GC 240 Operating Manual (P/N 1R120631-0002, Revision A) Thermo Scientific...
  • Page 159 You must push the door to close it completely. Do not apply excess force to the thumbscrews or components may be damaged. ▲ Thermo Scientific Orbitrap Exploris GC and Orbitrap Exploris GC 240 Operating Manual (P/N 1R120631-0002, Revision A) 8-45...
  • Page 160 14. Close the front door of the Orbitrap Exploris GC and Orbitrap Exploris GC 240. 15. Start up the instrument by following the steps in “Starting Up the System after a Shutdown” page 6-9. 8-46 Orbitrap Exploris GC and Orbitrap Exploris GC 240 Operating Manual (P/N 1R120631-0002, Revision A) Thermo Scientific...

  • Page 161: Maintenance Of The Ion Optics

    5. Free several coils of column inside the GC oven to allow the GC to be pulled away from the MS without breaking the column. Thermo Scientific Orbitrap Exploris GC and Orbitrap Exploris GC 240 Operating Manual (P/N 1R120631-0002, Revision A) 8-47...
  • Page 162 7. Lift up on the center brake to take off the GC brakes. Move the GC to the right away from the MS. See Figure 8-38. 8-48 Orbitrap Exploris GC and Orbitrap Exploris GC 240 Operating Manual (P/N 1R120631-0002, Revision A) Thermo Scientific...
  • Page 163 Then grab the Orbitrap-shaped handles of the cover with both hands and lift it off. Store the cover in a safe place. Thermo Scientific Orbitrap Exploris GC and Orbitrap Exploris GC 240 Operating Manual (P/N 1R120631-0002, Revision A) 8-49...
  • Page 164 Bent Flatapole Quadrupole Figure 8-41. Inside of quadrupole chamber (customer accessible parts) 12. Put on a new pair of lint- and powder-free gloves. 8-50 Orbitrap Exploris GC and Orbitrap Exploris GC 240 Operating Manual (P/N 1R120631-0002, Revision A) Thermo Scientific...
  • Page 165 14. The screws should be moving freely by a few millimeters, but remain in the holder. See Figure v. (The other four hex screws hold the EMC bracket on the quadrupole holder.) ❖ Quadrupole screws Thermo Scientific Orbitrap Exploris GC and Orbitrap Exploris GC 240 Operating Manual (P/N 1R120631-0002, Revision A) 8-51...

  • Page 166: Cleaning The Bent Flatapole

    5. Lift up the assembly until the bent flatapole is clear of the analyzer chamber. Put it on a clean, lint-free surface. 8-52 Orbitrap Exploris GC and Orbitrap Exploris GC 240 Operating Manual (P/N 1R120631-0002, Revision A) Thermo Scientific...
  • Page 167 See Figure 8-46. Put the lens on a clean, lint-free surface.The white insulator rings will stay in place. Thermo Scientific Orbitrap Exploris GC and Orbitrap Exploris GC 240 Operating Manual (P/N 1R120631-0002, Revision A) 8-53...
  • Page 168 3. Assemble the quadrupole cleaning tool by attaching the cleaning tool to the handle. 8-54 Orbitrap Exploris GC and Orbitrap Exploris GC 240 Operating Manual (P/N 1R120631-0002, Revision A) Thermo Scientific...
  • Page 169 7. Insert the handle of the cleaning tool carefully into the exit side of the quadrupole until it emerges on the entrance side. Thermo Scientific Orbitrap Exploris GC and Orbitrap Exploris GC 240 Operating Manual (P/N 1R120631-0002, Revision A) 8-55...
  • Page 170 To clean the bent flatapole exit lens 1. Clean the inside of the orifice with a conical swab that is soaked with a 50:50 isopropanol:water solution. 8-56 Orbitrap Exploris GC and Orbitrap Exploris GC 240 Operating Manual (P/N 1R120631-0002, Revision A) Thermo Scientific...
  • Page 171 Figure 8-52. Checking the quadrupole seating 3. Tighten the four 3 mm hex screws. Thermo Scientific Orbitrap Exploris GC and Orbitrap Exploris GC 240 Operating Manual (P/N 1R120631-0002, Revision A) 8-57...
  • Page 172 If the bakeout has not started after 15 minutes, trigger it manually from the diagnostics section in the Tune software. 8-58 Orbitrap Exploris GC and Orbitrap Exploris GC 240 Operating Manual (P/N 1R120631-0002, Revision A) Thermo Scientific...

  • Page 173: Consumables

    “Maintenance of the Forepump” page 8-10 information about forepump oil disposal. Also refer to the Material Safety Data Sheet (MSDS) for the forepump oil. Thermo Scientific Orbitrap Exploris GC and Orbitrap Exploris GC 240 Operating Manual (P/N 1R120631-0002, Revision A) 8-59...

  • Page 174: Thermo Fisher Scientific Service

    Table 8-4. Thermo Fisher Scientific service procedures MS Component Procedure Frequency Change operating fluid reservoir Every four years Change TMP bearing Every four years 8-60 Orbitrap Exploris GC and Orbitrap Exploris GC 240 Operating Manual (P/N 1R120631-0002, Revision A) Thermo Scientific...
  • Page 175 Maintenance Thermo Fisher Scientific Service Thermo Scientific Orbitrap Exploris GC and Orbitrap Exploris GC 240 Operating Manual (P/N 1R120631-0002, Revision A) 8-61...

  • Page 177: Chapter 9 Replaceable Parts

    Source Removal Tool (Small) ..... .1R120406-2250 Thermo Scientific Orbitrap Exploris GC and Orbitrap Exploris GC 240 Operating Manual (P/N 1R120631-0002, Revision A)
  • Page 178 Probe Kit ........1R120705-0036 Orbitrap Exploris GC and Orbitrap Exploris GC 240 Operating Manual (P/N 1R120631-0002, Revision A)
  • Page 179 Legal Documents Contents • FCC Compliance Statement page 10-2 • WEEE Compliance page 10-3 • Declaration of Conformity page 10-5 Thermo Scientific Orbitrap Exploris GC and Orbitrap Exploris GC 240 Operating Manual (P/N 1R120631-0002, Revision A) 10-1...

  • Page 180: Appendix 10 Legal Documents

    Connect the receiver into an outlet on a circuit different from that to which the equipment is connected. • Consult the dealer or an experienced radio/TV technician for help. 10-2 Orbitrap Exploris GC and Orbitrap Exploris GC 240 Operating Manual (P/N 1R120631-0002, Revision A) Thermo Scientific...

  • Page 181: Weee Compliance

    For information about the Restriction on Hazardous Substances (RoHS) Directive for the European Union, search for RoHS on the Thermo Fisher Scientific European language websites. Thermo Scientific Orbitrap Exploris GC and Orbitrap Exploris GC 240 Operating Manual (P/N 1R120631-0002, Revision A) 10-3...
  • Page 182 Legal Documents WEEE Compliance 10-4 Orbitrap Exploris GC and Orbitrap Exploris GC 240 Operating Manual (P/N 1R120631-0002, Revision A) Thermo Scientific...

  • Page 183: Declaration Of Conformity

    Design as required by the European Union Low Voltage Directive (2014/35/EU) and the Restriction of Hazardous Substances Directive (2015/863/EU). Director, Applied Research Brody Guckenberger Title Name Signature Thermo Scientific Orbitrap Exploris GC and Orbitrap Exploris GC 240 Operating Manual (P/N 1R120631-0002, Revision A) 10-5...
  • Page 184 Design as required by the European Union Low Voltage Directive (2014/35/EU) and the Restriction of Hazardous Substances Directive (2015/863/EU). Director, Applied Research Brody Guckenberger Title Name Signature 10-6 Orbitrap Exploris GC and Orbitrap Exploris GC 240 Operating Manual (P/N 1R120631-0002, Revision A) Thermo Scientific...
  • Page 185 Return Number Name of authorized person (block letters) Date Signature Company stamp Thermo Scientific Orbitrap Exploris GC and Orbitrap Exploris GC 240 Operating Manual (P/N 1R120631-0002, Revision A) 10-7 Health and Safety Form (P/N 1342350, Revision H) Page 2 of 2...

  • Page 187: Index

    3-16 bath gas 5-16 forepumps connection to HCD cell 3-23 control 3-9, 5-10, 5-13 function 3-18, 3-20, 3-23 exhaust filter 8-10 gas supply Thermo Scientific Orbitrap Exploris GC and Orbitrap Exploris GC 240 Operating Manual (P/N 1R120631-0002, Revision A)
  • Page 188 Installation Kit 3-11, 5-17 instrument 4-3, instrument dimensions forevacuum measurement 3-24 high-vacuum measurement 3-24 moving 4-3, nitrogen operating voltage 3-13 Orbitrap Exploris GC and Orbitrap Exploris GC 240 Operating Manual (P/N 1R120631-0002, Revision A) Thermo Scientific...
  • Page 189 8-15, 8-18 Power LED 6-12 switching on, the vacuum system 3-24 power supply, for accessories system power supply, for forepump 3-12 bakeout 3-25, 8-11 Thermo Scientific Orbitrap Exploris GC and Orbitrap Exploris GC 240 Operating Manual (P/N 1R120631-0002, Revision A)
  • Page 190 8-11 weight, of instrument maintenance 8-11 status workbench, for instrument 3-25 uninterruptible power supply Xcalibur 3-26 user maintenance 8-1, Z-lens 3-3, 3-16 vacuum Orbitrap Exploris GC and Orbitrap Exploris GC 240 Operating Manual (P/N 1R120631-0002, Revision A) Thermo Scientific...

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