Waters Xevo G2 QTof Operator'S, Overview And Maintenance Manual Download Page 12

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Table of Contents

NanoLockSpray source and ionization modes .......................................... 1-9

Combined APPI/APCI source ....................................................................... 1-11

IntelliStart Fluidics system .......................................................................... 1-11

IntelliStart Fluidics system physical layout ................................................ 1-12
System operation ........................................................................................... 1-13

Ion optics ........................................................................................................... 1-14

Leak sensors ..................................................................................................... 1-15

Vacuum system ................................................................................................ 1-15

2 Preparing the Mass Spectrometer for Operation ........................... 2-1

Starting the mass spectrometer .................................................................... 2-2

Verifying the instrument’s state of readiness ................................................   2-3
Monitoring the mass spectrometer LEDs.......................................................   2-3
Calibration .......................................................................................................   2-3
Flow rates for the Xevo G2 QTof system ........................................................   2-4

Preparing the IntelliStart Fluidics system ................................................. 2-4

Installing the reservoir bottles........................................................................   2-4
Adjusting the solvent delivery tube positions ................................................   2-7
Purging the pump ............................................................................................   2-8

Rebooting the mass spectrometer ................................................................. 2-8

Leaving the mass spectrometer ready for operation ............................... 2-8

Emergency shutdown of the mass spectrometer ....................................... 2-9

3 Configuring the LockSpray Source ................................................... 3-1

Configuring the LockSpray source ............................................................... 3-2

Configuring for ESI mode ............................................................................... 3-2

Installing the ESI probe .................................................................................. 3-2
Removing the ESI probe.................................................................................. 3-6

Installing the small-bore capillary option .................................................. 3-7

Summary of Contents for Xevo G2 QTof

Page 2: ...marks ACQUITY ACQUITY UPLC Connections INSIGHT ESCi UPLC and Waters are registered trademarks of Waters Corporation IntelliStart LockSpray MassLynx NanoFlow NanoLockSpray T Wave THE SCIENCE OF WHAT S...

Page 3: ...ntacting Waters Contact Waters with enhancement requests or technical questions regarding the use transportation removal or disposal of any Waters product You can reach us via the Internet telephone o...

Page 4: ...ply pressure fall below 690 kPa 6 9 bar 100 psi during analyses that require flammable solvents Connect to the LC output with a gas fail connector to stop the LC solvent if the nitrogen supply fails W...

Page 5: ...avoid injuries from broken glass falling objects or exposure to toxic substances never place containers on top of the instrument or on its front covers Warning To avoid burn injuries do not touch the...

Page 6: ...vel of residual contamination permissible Management must also prescribe the method of decontamination to be used and the appropriate protection for personnel undertaking the decontamination process Y...

Page 7: ...designed the orthogonal acceleration time of flight Xevo G2 QTof for use as a research tool to deliver authenticated mass measurement The Xevo G2 QTof is for research use only and is not intended for...

Page 8: ...al normal and above normal levels of a compound Ensure that QC sample results fall within an acceptable range and evaluate precision from day to day and run to run Data collected when QC samples are o...

Page 9: ...ix EC authorized representative Waters Corporation Micromass UK Ltd Floats Road Wythenshawe Manchester M23 9LZ United Kingdom Telephone 44 161 946 2400 Fax 44 161 946 2480 Contact Quality manager...

Page 10: ...x...

Page 11: ...viii ISM classification viii ISM Classification ISM Group 1 Class A viii EC authorized representative ix 1 Waters Xevo G2 QTof Overview 1 1 Waters Xevo G2 QTof 1 2 IntelliStart technology 1 2 ACQUITY...

Page 12: ...itoring the mass spectrometer LEDs 2 3 Calibration 2 3 Flow rates for the Xevo G2 QTof system 2 4 Preparing the IntelliStart Fluidics system 2 4 Installing the reservoir bottles 2 4 Adjusting the solv...

Page 13: ...platform adjuster assembly 4 4 Configuring the NanoLockSpray source 4 4 Source type selection 4 5 Advancing and retracting the sprayer platform 4 6 Adjusting the sprayer tip position 4 7 Setting up th...

Page 14: ...Varian roughing pump s oil and oil mist filter 5 23 Emptying the roughing pump s oil 5 23 Replacing the oil mist filter 5 24 To fill the pump with oil 5 26 Cleaning the source components 5 28 Cleanin...

Page 15: ...asket 5 65 Replacing the ESI probe sample capillary 5 66 Removing the existing capillary 5 66 Installing the new capillary 5 71 Cleaning the APCI probe tip 5 75 Replacing the APCI probe sample capilla...

Page 16: ...s lock spray system 5 108 Plumbing the IntelliStart Fluidics sample delivery system 5 116 A Safety Advisories A 1 Warning symbols A 2 Task specific hazard warnings A 2 Specific warnings A 3 Caution sy...

Page 17: ...LC B 19 Connecting Ethernet cables systems with ACQUITY LC B 20 Input output signal connectors B 20 Signal connections B 23 Connecting to the electricity source B 26 Connecting the NanoLockSpray sourc...

Page 18: ...xviii Table of Contents...

Page 19: ...ls sources and IntelliStart Fluidics system Contents Topic Page Waters Xevo G2 QTof 1 2 LockSpray source and ionization modes 1 6 NanoLockSpray source and ionization modes 1 9 Combined APPI APCI sourc...

Page 20: ...ment For the instrument s specifications see the Waters Xevo G2 QTof Site Preparation Guide IntelliStart technology IntelliStart technology monitors instrument performance and reports when it is ready...

Page 21: ...e nanoACQUITY Xevo G2 QTof UPLC MS system includes a nanoACQUITY UPLC system and the Waters Xevo G2 QTof fitted with the NanoLockSpray source ACQUITY UPLC system The ACQUITY UPLC system includes a bin...

Page 22: ...Sample organizer optional Solvent tray Column heater Xevo G2 QTof Sample manager Binary solvent manager Access door to the fluidics pump High voltage connector for the ESI probe Probe Source interface...

Page 23: ...her information see the nanoACQUITY UPLC System Operator s Guide or Controlling Contamination in UPLC MS and HPLC MS Systems part number 715001307 You can find the latter document on http www waters c...

Page 24: ...a within the Waters informatics software in which you configure settings monitor performance run diagnostic tests and maintain the mass spectrometer The instrument console functions independently of t...

Page 25: ...e eluent as it emerges from a nebulizer The droplets that compose the resultant aerosol undergo a reduction in size solvent evaporation As solvent continues to evaporate the charge density increases u...

Page 26: ...kSpray source in APCI mode you fit the source enclosure with a corona pin and an APCI probe Mobile phase from the LC column enters the probe where it is pneumatically converted to an aerosol rapidly h...

Page 27: ...nL min For a given sample concentration the ion currents for similar experiments approximate those in normal flow rate electrospray However because sample consumption is greatly reduced the sensitivi...

Page 28: ...Y uses a pump to regulate the flow rate as low as 100 nL min Borosilicate glass capillary NanoFlow nanovials This option uses metal coated glass capillaries which allow the lowest flow rates Usable fo...

Page 29: ...applications the system delivers sample directly to the mass spectrometer source in one of three ways From the LC column From three integral reservoir bottles Use standard reservoir bottles 30 mL for...

Page 30: ...s the components shown in the following figure IntelliStart Fluidics system components A B C A A B B C A A B B C W at er s W at er s A A B B C C Lock spray selector valve Sample selector valve Divert...

Page 31: ...the appropriate reservoir You can simultaneously illuminate all three reservoirs or extinguish the LEDs for light sensitive samples Recommendation Use reservoir A for the sample solution reservoir B f...

Page 32: ...collision cell where they can undergo collision induced dissociation CID 5 The ions then pass into the time of flight ToF analyzer A high voltage pulse orthogonally accelerates the ions up the flight...

Page 33: ...nance instructions part number 71500082506 for complete details Vacuum system An external roughing pump and three internal turbomolecular pumps maintain the instrument s vacuum Protective interlocks g...

Page 34: ...1 16 Waters Xevo G2 QTof Overview...

Page 35: ...art up and shut down the mass spectrometer Contents Topic Page Starting the mass spectrometer 2 2 Preparing the IntelliStart Fluidics system 2 4 Rebooting the mass spectrometer 2 8 Leaving the mass sp...

Page 36: ...supply at 600 to 690 kPa 6 0 to 6 9 bar 90 to 100 psi 2 Ensure that the collision gas supply is connected to the instrument s collision cell gas inlet Requirement The collision gas is argon it must b...

Page 37: ...g condition the software indicates Ready in the instrument console Verifying the instrument s state of readiness When the mass spectrometer is in good operating condition the power and status LEDs sho...

Page 38: ...les 30 mL for instrument setup and calibration Use the Low volume Adaptor Kit included to infuse smaller volumes The low volume vials have a volume of 1 5 mL Required materials Chemical resistant powd...

Page 39: ...3 For each reservoir bottle ensure that the ends of the solvent delivery tubes are positioned so that they are close to but do not touch the bottom of the bottle see page 2 7 Warning The reservoir bot...

Page 40: ...at the ends of the solvent delivery tubes are positioned so that they are close to but do not touch the bottom of the vial see page 2 7 Warning The reservoir bottles can be contaminated with biohazard...

Page 41: ...r bottle or low volume vial To adjust the position of a solvent delivery tube 1 Open the access door to the fluidics pump see the figure on page 1 4 2 Loosen the finger tight fitting for the solvent d...

Page 42: ...the mass spectrometer The reset button on the external EPC reboots the mass spectrometer Reboot the mass spectrometer when either of these conditions applies The console software fails to initialize...

Page 43: ...ergency 1 Switch off the power at the electrical outlet Result The instrument turns off and vents 2 Disconnect the power cable from the instrument s rear panel Warning To isolate the instrument from t...

Page 44: ...2 10 Preparing the Mass Spectrometer for Operation...

Page 45: ...modes ESI electrospray ionization APCI atmospheric pressure ionization ESCi combined electrospray and atmospheric pressure ionization Contents Topic Page Configuring the LockSpray source 3 2 Configuri...

Page 46: ...to the LockSpray source enclosure If you intend using the small bore capillary option fit the capillary to the probe first see page 3 7 For more information on using ESI mode see the Xevo G2 QTof sys...

Page 47: ...location hole in the probe adjuster assembly Warning The LC system connections ESI probe and source can be contaminated with biohazardous and or toxic materials Always wear chemical resistant powder f...

Page 48: ...long finger tight fitting connect 0 004 inch ID or greater tubing from port 2 the top port of the diverter valve to the ESI probe where you use a PEEK finger tight nut and ferrule to connect to the u...

Page 49: ...ube connecting the diverter valve to the ESI probe Doing so minimizes delays and dispersion When cutting the tubing to length cut it squarely that is perpendicular to its horizontal axis Long finger t...

Page 50: ...g ring 5 Carefully remove the ESI probe from the probe adjuster assembly 6 If available fit the protective sleeve to the ESI probe tip Warning The LC system connections ESI probe and source can be con...

Page 51: ...ombined 2 5 mm Allen wrench and cone extraction tool 10 mm wrench 8 mm wrench 7 mm wrenches 2 LC pump HPLC grade or better 1 1 acetonitrile water Sharp knife or PEEK tubing cutter From the small bore...

Page 52: ...EK tubing in the probe inlet connector and screw the connector finger tight into the PEEK finger tight nut and ferrule Rationale Doing so ensures a minimum dead volume when fitting the capillary Warni...

Page 53: ...n place 8 Using the 7 mm wrench for the locknut and the 8 mm wrench for the PEEK union tighten the locknut against the PEEK union until the union can no longer be twisted 9 Using the needle nose plier...

Page 54: ...14 Remove the PEEK finger tight nut and ferrule and red PEEK tubing from the PEEK union 15 Carefully thread the capillary through the probe assembly 16 Carefully push the PEEK union UNF coupling assem...

Page 55: ...new metal gasket to the probe tip 20 Fit the probe tip over the capillary and screw the tip onto the probe assembly 21 Use the 10 mm wrench to tighten the probe tip Caution To avoid gas leakage fully...

Page 56: ...approximately 0 5 mm from the end of the probe tip Tip During normal operation the adjuster knob relies on gas pressure to retract the capillary To retract the capillary without gas connected invert t...

Page 57: ...see page 3 2 Configuring for APCI mode To operate in APCI mode you must fit the APCI probe and corona pin to the LockSpray source enclosure For more information on using APCI mode see the Xevo G2 QTof...

Page 58: ...igns with the location hole in the probe adjuster assembly Warning The LC system connections APCI probe and source can be contaminated with biohazardous and or toxic materials Always wear chemical res...

Page 59: ...1 12 5 Using a long finger tight fitting connect 0 004 inch ID or greater tubing from port 2 the top port of the diverter valve to the APCI probe where you use a PEEK finger tight nut and ferrule to c...

Page 60: ...ou are replacing the tubing supplied with the instrument you must minimize the length of the tube connecting the diverter valve to the ESI probe Doing so minimizes delays and dispersion When cutting t...

Page 61: ...diverter valve tubing from the APCI probe 4 Unscrew the probe locking ring 5 Carefully remove the probe from the probe adjuster assembly Caution Ensure that the tubing does not become trapped when clo...

Page 62: ...tating data acquisition in ESI and ESCi modes in parallel For more information on using dual ESI and ESCi modes see the Xevo G2 QTof system online Help See Installing the ESI probe on page 3 2 Install...

Page 63: ...the ion source This feature provides authenticated exact mass measurement in MS mode at low flow rates Contents Topic Page Overview of the NanoLockSpray source 4 2 Configuring the NanoLockSpray source...

Page 64: ...to one another The sample flows through one probe and the lock mass reference through the other A motorized baffle rotates to admit spray from either probe to the sampling cone Sprayer platform adjus...

Page 65: ...the sample data to provide exact mass information Sample sprayer The NanoLockSpray source can be used with different NanoFlow sprayers For sprayer specific instructions on how to set up these sprayers...

Page 66: ...can also withdraw the sprayer from the source to allow access to the sprayer tip Using the two thumbscrews on the base of the adjuster assembly you can move the platform in and out of the source see...

Page 67: ...Used for Universal NanoFlow nebulizer sprayer Flow injection or for coupling to nanoACQUITY with regulated flow rates down to 100 nL min Borosilicate glass capillary NanoFlow For further details see...

Page 68: ...umbscrew locking the platform in the withdrawn position To move the sprayer platform into the source 1 Confirm that the sprayer s safety cover is installed see the figure on page 4 2 2 Pull out the si...

Page 69: ...he centre of the alignment marker Sprayer platform showing arrow and alignment marker 3 Adjust the horizontal position of the sprayer so that the tip points toward the left hand side of the baffle Tip...

Page 70: ...nstrument console ensure that the NanoFlow source is selected 2 Open the camera control see the online help for details Camera Control view of sprayers and sample cone 3 Rotate the camera s focusing r...

Page 71: ...capillary requires a backpressure without a flow To resolve this situation the backpressure gas is plumbed from the source to the glass capillary sprayer through an in line tee piece The tee piece pe...

Page 72: ...ry sprayer Required materials Chemical resistant powder free gloves To install the glass capillary sprayer 1 Prepare the instrument for working on the source see page 5 7 2 Ensure the instrument is in...

Page 73: ...lary Required materials Chemical resistant powder free gloves Fused silica syringe needle or a GELoader tip To fit and load the glass capillary 1 Unscrew the union at the front of the sprayer and remo...

Page 74: ...of the glass capillary protrudes about 7 mm from the front of the knurled nut as measured from the end of the nut to the shoulder of the glass capillary and then full tighten the nut onto the union W...

Page 75: ...rtain that sample is flowing by observing a droplet on the tip Tip If you cannot observe a droplet increase the pressure briefly up to a maximum of 1 5 bar and then return the pressure to 0 3 bar 3 If...

Page 76: ...turn the pressure to 0 3 bar 8 If you observe a droplet continue the procedure at step 9 Requirement If you do not observe a droplet repeat step 4 through step 8 If after you repeat step 4 through ste...

Page 77: ...nd refitting of the source enclosure 5 7 Installing and removing the corona pin 5 11 Operating the source isolation valve 5 14 Removing O rings and seals 5 17 Cleaning the instrument case 5 17 Emptyin...

Page 78: ...LockSpray source 5 82 Replacing the reference probe capillary NanoLockSpray source 5 85 Cleaning or replacing the corona pin 5 90 Replacing the APCI probe heater 5 91 Replacing the ion block source he...

Page 79: ...e 5 23 Replace the oil free scroll pump s seals Annually See Edwards document XDS35i Instruction Manual A730 01 880 Clean the source components When sensitivity decreases to unacceptable levels See pa...

Page 80: ...sensitivity decreases to unacceptable levels See page 5 90 Replace the APCI probe heater If the heater fails to heat the probe See page 5 91 Replace the ion block heater cartridge If the heater fails...

Page 81: ...a real time collaboration option that controls the two way connection with the ACQUITY UPLC system by enabling the Connections INSIGHT iAssist service level Consult these sources for more information...

Page 82: ...nstrument Know the physical and chemical properties of the solvents used see the Material Safety Data Sheets for the solvents in use Warning To avoid electric shock do not remove the instrument s pane...

Page 83: ...irm that the operate indicator is not illuminated 3 Set the source temperature to 30 C 4 Wait for the source temperature desolvation temperature or APCI probe temperature to cool 5 Ensure that the API...

Page 84: ...e outwards and swing open the enclosure Warning The source components can be contaminated with biohazardous and or toxic materials Always wear chemical resistant powder free gloves while performing th...

Page 85: ...e source enclosure and lift it vertically off the two supporting studs on the source adaptor housing 7 Store the cables neatly by plugging them into the cable storage positions on the rear of the sour...

Page 86: ...ects to the blue connector and the yellow sleeved cable to the yellow connector 4 Slide closed the instrument s source interface door Warning The source components can be contaminated with biohazardou...

Page 87: ...e the blanking plug from the corona pin mounting contact Tip Store the blanking plug in a safe location Warning The LC system connections ESI probe and source can be contaminated with biohazardous and...

Page 88: ...unting contact ensuring that the corona pin is securely mounted and that its tip aligns with the sample cone orifice Corona pin Warning The corona pin tip is sharp To avoid puncture wounds handle it w...

Page 89: ...n from its mounting contact see the figure on page 5 12 Tip Store the corona pin in a safe location 4 Fit the blanking plug to the corona pin mounting contact see the figure on page 5 12 5 Close the s...

Page 90: ...wards and swing open the enclosure Warning The source components can be contaminated with biohazardous and or toxic materials Always wear chemical resistant powder free gloves while performing this pr...

Page 91: ...Operating the source isolation valve 5 15 3 Close the source isolation valve by moving its handle counterclockwise to the vertical position TP03130 Isolation valve handle in closed position...

Page 92: ...e source components can be contaminated with biohazardous and or toxic materials Always wear chemical resistant powder free gloves while performing this procedure Warning To avoid puncture wounds take...

Page 93: ...O ring or seal from its groove Tip If the O ring or seal is not going to be reused you can use the forked end of tool 1 to impale the O ring or seal and aid removal Cleaning the instrument case Use a...

Page 94: ...rogen exhaust trap bottle in the instrument exhaust line daily and empty it before it is more than approximately 10 full Nitrogen exhaust trap bottle TP03164 From instrument exhaust connection To labo...

Page 95: ...n accordance with local environmental regulations 5 Fit and tighten the nitrogen exhaust trap bottle to the cap 6 Secure the nitrogen exhaust trap bottle in the upright position 7 Close the source enc...

Page 96: ...level sight glass Inspect the oil level weekly while the pump is running If the oil level is significantly below the maximum oil level indicated by the oil level sight glass add oil to the pump see pa...

Page 97: ...e is not required for an Edwards oil free roughing pump If on checking the pump s oil level you find it low you must add oil see page 5 20 Varian roughing pump Required materials Chemical resistant po...

Page 98: ...oid personal injury as well as damage to the roughing pumps and mass spectrometer disconnect the power cords for the mass spectrometer and roughing pumps from the main power source Warning The pump oi...

Page 99: ...and drips off the pump once the pump reaches operating temperature When the pump begins to run at normal operating temperature spilled oil becomes slightly odorous Replacing the Varian roughing pump s...

Page 100: ...9 Use the lint free cloth to remove loose particulate from the magnetic tip of the oil drain plug Replacing the oil mist filter Required materials Chemical resistant powder free gloves 3 mm Allen wren...

Page 101: ...2 Remove the oil mist canister cover from the oil mist canister Tip The cover can be tight and difficult to remove Warning The oil mist filter and canister components can be contaminated with analyte...

Page 102: ...ectly seated 7 Center the spring on top of the oil mist filter 8 Fit the spring over the collar on the oil mist canister cover and then fit the cover to the oil mist canister 9 Use the 3 mm Allen wren...

Page 103: ...ion 3 Fit and tighten the oil filler plug Warning The roughing pump components can be contaminated with analyte accumulated during normal operation Always wear chemical resistant powder free gloves wh...

Page 104: ...gins to run at normal operating temperature spilled oil becomes slightly odorous Cleaning the source components Clean the sample cone and cone gas nozzle when these conditions apply The sample cone an...

Page 105: ...assembly 90 degrees moving the handle from the vertical to horizontal position Warning The source components can be contaminated with biohazardous and or toxic materials Always wear chemical resistant...

Page 106: ...ne assembly out of the ion block assembly Caution Do not open the isolation valve at any time when the sampling cone assembly has been removed from the ion block assembly TP03131 Cone gas nozzle handl...

Page 107: ...assemble the sampling cone assembly 1 Retrieve the combined 2 5 mm Allen wrench and cone extraction tool from its storage location behind the source enclosure Warning The sampling cone assembly can be...

Page 108: ...5 32 Maintenance Procedures 2 Slide the collar to the end of the tool 3 Insert the collar in the sample cone Collar...

Page 109: ...se of it in accordance with local environmental regulations 7 Unscrew and remove the PEEK cone gas nozzle handle from the cone gas nozzle Caution The sample cone is fragile Never place it on its tip a...

Page 110: ...1 If the sample cone contains debris place a drop of formic acid on its orifice 2 Immerse the sample cone cone gas nozzle and cone gas nozzle handle in separate glass vessels containing 1 1 methanol...

Page 111: ...contamination If contamination is present do as follows a Use the wash bottle containing 1 1 methanol water to rinse the component over the large beaker b Blow dry the component with inert oil free g...

Page 112: ...Fit the O ring a new one if you disposed of the old O ring into the groove created between the sample cone and cone gas nozzle Fitting the sampling cone assembly to the source Required materials Chemi...

Page 113: ...rce components can be contaminated with biohazardous and or toxic materials Always wear chemical resistant powder free gloves while performing this procedure Warning To avoid puncture wounds take grea...

Page 114: ...block assembly from the source assembly in order to clean the extraction cone Removing the ion block assembly from the source assembly Required materials Chemical resistant powder free gloves Combine...

Page 115: ...sembly securing screws Warning The source can be hot To avoid burn injuries allow it to cool for at least 30 minutes before proceeding Warning To avoid puncture wounds take great care while working wi...

Page 116: ...5 40 Maintenance Procedures 5 Remove the ion block assembly from the PEEK ion block support TP03130 Ion block assembly PEEK ion block support...

Page 117: ...ined 2 5 mm Allen wrench and cone extraction tool to loosen the captive screws securing the 2 PEEK extraction cone retainer clips and then rotate the retainer clips clear of the extraction cone Warnin...

Page 118: ...y sized glass vessel in which to completely immerse the extraction cone when cleaning Use only glassware not previously cleaned with surfactants HPLC grade or better methanol HPLC grade or better wate...

Page 119: ...in the ultrasonic bath for 20 minutes b Remove any residual water from the extraction cone by immersing it in a glass vessel containing methanol and then placing the vessel in the ultrasonic bath for...

Page 120: ...s Chemical resistant powder free gloves Combined 2 5 mm Allen wrench and cone extraction tool To fit the extraction cone to the ion block 1 Fit the extraction cone handle insulator to the extraction c...

Page 121: ...rce isolation valve is closed see page 5 14 4 Fit the source enclosure see page 5 10 5 Connect the power cords for the mass spectrometer and roughing pump to the main power source Warning The source c...

Page 122: ...Allen wrench and cone extraction tool O ring removal kit Needle nose pliers To disassemble the ion block assembly 1 Remove the ion block assembly from the source assembly see page 5 38 2 Ensure that t...

Page 123: ...ned 2 5 mm Allen wrench and cone extraction tool to loosen the 2 ion block cover plate captive securing screws 6 Remove the ion block cover plate Caution To ensure correct operation of the ion block a...

Page 124: ...ing shows signs of deterioration or damage dispose of it in accordance with local environmental regulations 10 Use the combined 2 5 mm Allen wrench and cone extraction tool to loosen the captive PEEK...

Page 125: ...edle nose pliers to gently grasp the heat shrink tubing on the heater cartridge assembly and carefully slide it and the PEEK terminal block out of the ion block Caution To avoid damaging the heater ca...

Page 126: ...the cone gas O ring from the ion block 15 If the cover seal or cone gas O ring shows signs of deterioration or damage dispose of them in accordance with local environmental regulations Warning The cov...

Page 127: ...ck blanking plug and associated O ring 17 If the blanking plug O ring shows signs of deterioration or damage dispose of it in accordance with local environmental regulations Warning The blanking plug...

Page 128: ...cone retainer clips 19 Remove the extraction cone from the ion block Caution Take great care not to damage the extraction cone aperture when removing the extraction cone from the ion block The extrac...

Page 129: ...stant powder free gloves Appropriately sized glass vessels in which to completely immerse components when cleaning Use only glassware not previously cleaned with surfactants HPLC grade or better metha...

Page 130: ...then placing the vessels in the ultrasonic bath for 10 minutes 4 Carefully remove the components from the vessels and blow dry them using inert oil free gas 5 Inspect each component for persisting co...

Page 131: ...ck assembly 1 Fit the extraction cone seal to the ion block 2 Fit the extraction cone handle insulator to the extraction cone handle 3 Fit the extraction cone to the ion block 4 Fit the 2 PEEK extract...

Page 132: ...r seal cone gas O ring and isolation valve O ring are free from dirt and debris Tip If contamination is present use 1 1 methanol water applied to a lint free cloth to carefully clean the grooves 12 Fi...

Page 133: ...bly Clean the source hexapole assembly if cleaning the ion block isolation valve and extraction cone fails to increase signal sensitivity Removing the ion block assembly ion block support and hexapole...

Page 134: ...ioration or damage dispose of them in accordance with local environmental regulations 6 Carefully grasp the source hexapole assembly and remove it from the adaptor housing Warning The O rings can be c...

Page 135: ...gas for example nitrogen for drying air drying optional HPLC grade or better 1 1 methanol water Wash bottle containing HPLC grade or better 1 1 methanol water Large beaker Small flat blade screwdriver...

Page 136: ...y 5 Place the vessel in the ultrasonic bath for 30 minutes 6 Carefully remove the hexapole assembly from the vessel and blow dry it using inert oil free gas Caution To avoid vibration damage to the he...

Page 137: ...Lint free cloth HPLC grade or better 1 1 methanol water New seals and O rings To fit the hexapole assembly and PEEK ion block support to the source 1 Carefully fit the source hexapole assembly into t...

Page 138: ...rk the ring into the groove in either direction from the notch 4 Fit the PEEK ion block support to the instrument s housing 5 Use the 3 mm Allen wrench to fit and tighten the 4 PEEK ion block support...

Page 139: ...aterials Chemical resistant powder free gloves 7 mm wrench 10 mm wrench To remove the ESI probe tip and gasket Warning The probe and source components can be contaminated with biohazardous and or toxi...

Page 140: ...I probe from the source see page 3 6 2 Use the 10 mm wrench to remove the probe tip Tip If the probe tip is difficult to remove use the 7 mm wrench in conjunction with the 10 mm wrench Probe tip 10 mm...

Page 141: ...obe tip is damaged dispose of it in accordance with local environmental regulations Fitting the ESI probe tip and gasket Required materials Chemical resistant powder free gloves 10 mm wrench New metal...

Page 142: ...ace the stainless steel sample capillary in the ESI probe if it becomes irreversibly blocked or if it becomes contaminated or damaged Removing the existing capillary Required materials Chemical resist...

Page 143: ...etaining screws Warning The probe and source components can be contaminated with biohazardous and or toxic materials Always wear chemical resistant powder free gloves while performing this procedure W...

Page 144: ...5 68 Maintenance Procedures 3 Remove the end cover and gasket from the probe assembly 4 Unscrew and remove the nebulizer adjuster knob End cover Nebulizer adjuster knob Gasket...

Page 145: ...mple capillary 5 69 5 Use the 10 mm wrench to remove the probe tip Tip If the probe tip is difficult to remove use the 7 mm wrench in conjunction with the 10 mm wrench Probe tip 10 mm wrench Probe tip...

Page 146: ...remove the knurled collar from the UNF coupling 9 Remove the knurled collar and conductive sleeve from the capillary 10 Use the 7 mm wrench to loosen the locknut Tip Use the 8 mm wrench to steady the...

Page 147: ...regulations Installing the new capillary Required materials Chemical resistant powder free gloves Combined 2 5 mm Allen wrench and cone extraction tool 10 mm wrench Needle nose pliers LC pump HPLC gr...

Page 148: ...red PEEK tubing in the probe inlet connector and screw the connector finger tight into the PEEK union Rationale Doing so ensures a minimum dead volume when fitting the capillary 3 Fit the UNF couplin...

Page 149: ...apillary 10 Tighten the knurled collar to the UNF coupling 11 Perform a leak test by attaching the free end of the PEEK tubing to an LC pump and pumping 50 50 acetonitrile water through it at 1 mL min...

Page 150: ...cover to the probe assembly 19 Use the combined 2 5 mm Allen wrench and cone extraction tool to fit and tighten the 3 probe end cover retaining screws 20 Fit a new metal gasket to the probe tip 21 Fi...

Page 151: ...n gas 4 Set Desolvation Gas to 650 L h 5 Set APCI probe Temp to 650 C 6 Click Operate 7 Wait 10 minutes Rationale The high IonSABRE II probe heater temperature removes any chemical contamination from...

Page 152: ...l to remove the 3 probe end cover retaining screws Warning The probe and source components can be contaminated with biohazardous and or toxic materials Always wear chemical resistant powder free glove...

Page 153: ...and gasket 4 Unscrew and remove the nebulizer adjuster knob 5 Remove the PEEK union UNF coupling assembly and capillary from the probe 6 Use the 7 mm wrench to loosen the locknut Nebulizer adjuster kn...

Page 154: ...Installing the new capillary Required materials Chemical resistant powder free gloves Needle nose pliers 7 mm wrench Combined 2 5 mm Allen wrench and cone extraction tool Red PEEK tubing LC pump HPLC...

Page 155: ...s a minimum dead volume when fitting the capillary 3 Fit the UNF coupling to the new capillary 4 Use the needle nose pliers to slide a new ferrule onto the capillary 5 Insert the capillary in the PEEK...

Page 156: ...e probe inlet connector and PEEK tubing from the PEEK union 12 Remove the probe heater see page 5 92 step 2 13 Carefully thread the capillary through the probe assembly 14 Carefully push the PEEK unio...

Page 157: ...ugh step 3 20 Fit the probe to the instrument see page 3 13 21 In the Instrument Console click API to start the probe and desolvation gas flows Caution When handling the probe heater take great care t...

Page 158: ...you can also replace the microfilter The microfilter is provided with manufacturer s instructions for fitting it in the spares kit for the reference probe assembly Removing the existing capillary Requ...

Page 159: ...to disconnect the SealTight nut on the inside of the source enclosure 6 Rotate the reference sprayer assembly clockwise through 90 and remove it from the reference sprayer support assembly 7 Use the...

Page 160: ...nstall the new capillary 1 Fit the capillary into the liner tubing 2 Fit the liner tubing and capillary to the reference sprayer assembly 3 Fit the reference probe tip and using the 4 mm wrench screw...

Page 161: ...bly blocked or if it is contaminated or damaged Removing the reference probe from the NanoLockSpray source Required materials Chemical resistant powder free gloves 1 5 mm Allen wrench 5 mm Allen wrenc...

Page 162: ...reference probe from the probe adjuster assembly Warning All plumbing connections the probe and the source can be contaminated with biohazardous and or toxic materials Always wear chemical resistant p...

Page 163: ...lations 10 Using the 1 5 mm Allen wrench unscrew the union retaining screw and remove the union 11 Remove any remaining shards of glass or other contaminants by cleaning the union as follows a Use the...

Page 164: ...r TaperTip A 375 mm length of 25 L fused silica capillary sleeved for protection by 0 015 inch ID PEEK tubing To install the new TaperTip and capillary 1 On the reference probe assembly screw the pin...

Page 165: ...ut crushing 9 Mount the reference probe on the NanoLockSpray source 10 Use the combined 2 5 mm Allen wrench and cone extraction tool to fit and tighten the 3 reference probe retaining screws 11 Using...

Page 166: ...accordance with local environmental regulations 4 Install the corona pin in the source see page 5 11 Warning The probe and source components can be contaminated with biohazardous and or toxic material...

Page 167: ...robe heater Required materials Chemical resistant powder free gloves To remove the APCI probe heater 1 Remove the probe from the source see page 3 17 Warning The probe and source components can be con...

Page 168: ...accordance with local environmental regulations Caution To avoid damaging the probe heater s electrical connections do not twist the heater when removing it from the probe assembly Warning The probe h...

Page 169: ...3 Fit the probe heater to the probe assembly ensuring that the heater is fully seated on the probe assembly 4 Fit the probe to the instrument s source see page 3 13 5 In the Instrument Console click...

Page 170: ...iers Combined 2 5 mm Allen wrench and cone extraction tool New ion block source heater To replace the ion block source heater 1 Remove the ion block assembly from the instrument see page 5 38 2 Ensure...

Page 171: ...crews securing the ion block cover plate 4 Remove the ion block cover plate 5 Use the combined 2 5 mm Allen wrench and cone extraction tool to remove the 2 screws securing the heater wires to the PEEK...

Page 172: ...lly swing the ring terminal tags out of the terminal block 7 Use the needle nose pliers to gently grasp the heat shrink tubing on the heater cartridge assembly and slide the assembly out of the ion bl...

Page 173: ...ck 12 Fit the ion block cover plate to the ion block assembly and then use the combined 2 5 mm Allen wrench and cone extraction tool to tighten the 2 captive screws securing ion block cover plate 13 F...

Page 174: ...r gas seal Source enclosure desolvation gas seal Removing the probe adjuster assembly probe and source enclosure seals Required materials Chemical resistant powder free gloves O ring removal kit To re...

Page 175: ...ly seals 5 99 3 Use the O ring removal kit to carefully remove the following seals from the source enclosure Source enclosure seal Nebulizer gas seal Desolvation gas seal Probe adjuster nebulizer gas...

Page 176: ...bly probe seals Required materials Chemical resistant powder free gloves Wash bottle containing HPLC grade or better 1 1 methanol water New seals Lint free cloth Warning The seals can be contaminated...

Page 177: ...e counterclockwise direction 3 Fit the following new seals to the source enclosure Nebulizer gas seal Desolvation gas seal Requirement These seals have a special cross section fit them in the groove a...

Page 178: ...g the air filter inside the front door Required materials Needle nose pliers New filter To replace the air filter inside the front door 1 Open the access door to the fluidics pump see the figure on pa...

Page 179: ...tically from its slot in the instrument Tip If necessary use the needle nose pliers to grasp the filter 5 Dispose of the filter 6 Fit the new filter into the instrument 7 Fit the filter cover to the i...

Page 180: ...ters are located on both sides of the instrument These filters are retained by louvered panels which you must remove to access the filters Filter panel on the right hand side of the instrument Note Tw...

Page 181: ...to remove the screws securing the louvered panel to the instrument enclosure 2 Remove the louvered panel from the instrument enclosure 3 Remove the filter from the instrument 4 Dispose of the filter...

Page 182: ...o not however address probe connections which vary according to your application For probe connection instructions see the relevant procedure For the ESI probe see page 3 2 For the APCI probe see page...

Page 183: ...selector sample selector and diverter valves 3 Unscrew and remove the PEEK thumbscrews and tubes from between the flow sensor and the grounded union 4 Close the access doors to the IntelliStart Fluidi...

Page 184: ...ttle B 0 020 1 16 Orange 680 3 Reservoir bottle C 0 020 1 16 Orange 680 4 Flow sensor 0 005 1 32 Red 200 5 Waste reservoir 0 040 1 16 Natural 1000 6 Wash reservoir 0 020 1 16 Orange 1000 7 Lock spray...

Page 185: ...1 m lengths A protective sleeve consisting of 0 015 inch ID PEEK tubing An F 130 finger tight nut Needle nose pliers To plumb the lock spray system Requirement Finger tighten all PEEK fittings 1 Open...

Page 186: ...itting 3 Using a long finger tight fitting connect orange 1 16 inch 680 mm PEEK tubing from port 1 of the lock spray selector valve through tubing guide A and into reservoir bottle A A B C A B C A B C...

Page 187: ...otate the tubing as necessary as you thread it through the guide 4 Using a long finger tight fitting connect orange 1 16 inch 680 mm PEEK tubing from port 2 of the lock spray selector valve to the ref...

Page 188: ...tight fitting connect orange 1 16 inch 1000 mm PEEK tubing from port 6 of the lock spray selector valve to the wash bottle Requirement Push the tubing to the bottom of the wash solution and secure the...

Page 189: ...left hand side of the flow sensor where you use the 1 32 inch 6 40 Valco compression fitting assembly Long finger tight PEEK nut and 1 32 inch PEEK ferrule 1 32 inch 6 40 Valco compression fitting ass...

Page 190: ...fitting assembly connect the red 1 32 inch 60 mm PEEK tubing between the flow sensor and the grounded union where you use a use a short finger tight nut and 1 32 inch ferrule Short finger tight nut an...

Page 191: ...g At the source reference probe connection use the PEEK finger tight nut and ferrule PEEK finger tight nut and ferrule For the NanoLockSpray source see page 5 88 11 Close the access doors to the Intel...

Page 192: ...d sample selector valve which is stainless steel Tubing dimensions sample delivery system Valve port Connection ID inch OD inch Color Length mm Sample 1 Waste reservoir 0 040 1 16 Natural 1000 Sample...

Page 193: ...Open the access doors to the IntelliStart Fluidics system 2 Using the stainless steel tubing connect the sample pump to port 7 of the sample selector valve Warning The IntelliStart Fluidics tubing and...

Page 194: ...PEEK female to male adaptor into port 7 d Slide the transparent 1 16 inch flangeless nut and blue 1 16 inch flangeless ferrule over the tubing Rationale These components provide fail safe pressure rel...

Page 195: ...collects waste without requiring a fitted connection Waste drains through the connector at the base of the instrument and into the waste bottle see page B 15 4 Using a long finger tight fitting connec...

Page 196: ...ough the right hand hole to the bottom of the reservoir bottle and tighten the fitting Tips Follow these suggestions if you find threading the tubes through the guides difficult Thread the tubes upwar...

Page 197: ...mple selector valve to port 3 of the diverter valve 8 Using a long finger tight fitting connect 1 16 inch 1000 mm natural colored PEEK tubing to port 4 of the diverter valve and thread it securely int...

Page 198: ...be observing the relevant procedure For the ESI probe see page 3 2 For the APCI probe see page 3 13 10 Close the access doors to the IntelliStart Fluidics system Caution Ensure that the tubing does no...

Page 199: ...des also include the hazard symbols with accompanying text statements describing the hazards and telling you how to avoid them This appendix presents all the safety symbols and statements that apply t...

Page 200: ...isks include burn injuries electric shocks ultraviolet radiation exposures and others When the following symbols appear in a manual s narratives or procedures their accompanying text identifies the sp...

Page 201: ...alth threat Warning Risk of tipping Warning Risk of explosion Warning Pressurized nonmetallic or polymer tubing can burst Observe these precautions when working around such tubing Wear eye protection...

Page 202: ...Ensure that the nitrogen supply pressure never falls below 690 kPa 6 9 bar 100 psi during an analysis in which flammable solvents are used Also ensure a gas fail connection is connected to the LC syst...

Page 203: ...nisms and other biological materials To avoid infection with these agents assume that all biological fluids are infectious observe Good Laboratory Practice and consult your organization s biohazard sa...

Page 204: ...ler le droit de l utilisateur exploiter l quipement Achtung Jedwede nderungen oder Modifikationen an dem Ger t ohne die ausdr ckliche Genehmigung der f r die ordnungsgem e Funktionst chtigkeit verantw...

Page 205: ...e trouvant proximit de l instrument Evitez d utiliser des tubes s v rement d form s ou endommag s Evitez d utiliser des tubes non m talliques avec du t trahydrofurane THF ou de l acide sulfurique ou n...

Page 206: ...iamenti nei tubi non metallici riducendo notevolmente la pressione di rottura dei tubi stessi Advertencia se recomienda precauci n cuando se trabaje con tubos de pol mero sometidos a presi n El usuari...

Page 207: ...Warnings that apply to all Waters instruments A 9 Nonmetallic Tetrahydrofuran THF Methylene chloride Dimethyl sulfoxide THF...

Page 208: ...tueuses Vorsicht Der Benutzer wird darauf aufmerksam gemacht dass bei unsachgem er Verwenddung des Ger tes die eingebauten Sicherheitseinrichtungen unter Umst nden nicht ordnungsgem funktionieren Atte...

Page 209: ...ls These can appear in instrument user manuals and on the instrument s front or rear panels Electrical power on Electrical power off Standby Direct current Alternating current Protective conductor ter...

Page 210: ...visories Handling symbols These handling symbols and their associated text can appear on labels affixed to the outer packaging of Waters instrument and component shipments Keep upright Keep dry Fragil...

Page 211: ...procedures Contents Topic Page Mass spectrometer external wiring and vacuum connections B 2 Connecting the Varian oil filled roughing pump B 3 Connecting the Edwards oil free roughing pump B 7 Connec...

Page 212: ...l Connections 1 10 1 System Activity 200 240V 50 60Hz 1 1kW Video Output Service Bus Instrument LAN 1 2 3 4 5 6 7 8 9 10 Event In 1 ExternalConnections1 Not used CE Interlock OUT Event In 2 Not used I...

Page 213: ...t driver Sharp knife NW25 center rings included in the Xevo G2 QTof installation kit NW25 clamps included in the Xevo G2 QTof installation kit 12 7 mm clear PVC exhaust tubing included in the Xevo G2...

Page 214: ...der free gloves when performing this procedure Caution To ensure correct operation of the roughing pump install it within 1 degree of horizontal Locate the roughing pump in an area where the ambient t...

Page 215: ...MS Site Preparation Guide part number 715001948 8 Inspect the oil level in the pump see Inspecting the Varian roughing pump oil level on page 5 20 and if necessary Adding oil to the Varian roughing pu...

Page 216: ...pump power cord to the main power source 2 Connect the relay cable from the roughing pump d c connector to the backing pump control connector on the mass spectrometer s rear panel Tip Use the higher...

Page 217: ...included in the Xevo G2 QTof installation kit NW25 clamps included in the Xevo G2 QTof installation kit NW40 center rings included in the Xevo G2 QTof installation kit NW40 clamps included in the Xevo...

Page 218: ...sistant powder free gloves when performing this procedure Caution To ensure correct operation of the roughing pump install it within 1 degree of horizontal Locate the roughing pump is located in an ar...

Page 219: ...amp tightening it with the 7 mm nut driver 6 Secure the exhaust tubing with a hose clamp 7 Route the open end of the exhaust tubing to a suitable exhaust vent For further information see the Waters Xe...

Page 220: ...nnector to the backing pump control connector on the mass spectrometer s rear panel Tip Use the higher of the two connectors The lower connector is for delayed backing pump control Connecting to the n...

Page 221: ...rogen supply Requirement The nitrogen must be dry and oil free with a purity of at least 95 3 Connect the free end of the 6 mm PTFE tubing to the nitrogen regulator 4 Set the nitrogen regulator to 700...

Page 222: ...tube to the collision cell gas inlet on the rear of the mass spectrometer see the figure on page B 11 2 Use the 7 16 inch wrench to tighten the 1 8 inch Swagelok nut 3 Attach the argon regulator to t...

Page 223: ...psi below atmospheric pressure negative pressure The exhaust connections can be contaminated with biohazardous and or toxic materials Always wear chemical resistant powder free gloves when performing...

Page 224: ...t the free end of the tubing to the pilot valve port on the nitrogen exhaust trap bottle 5 Cut a length of 12 mm tubing long enough to connect the instrument to the nitrogen exhaust trap bottle Cautio...

Page 225: ...als Chemical resistant powder free gloves Waste container To connect the liquid waste line 1 Place a suitable waste container below the mass spectrometer 2 Slide a drain line over the barbed fitting o...

Page 226: ...bove the surface of the waste solvent Warning To prevent leakage of biohazardous and or toxic materials do not crimp or bend drain line A crimp or bend can impede flow to the waste container empty the...

Page 227: ...Connecting the liquid waste line B 17 Positioning of drain tube TP01807 Correct Incorrect...

Page 228: ...y EPC cable to the 25 way D type connector on the instrument 2 Connect the free end of the 25 way EPC cable to the 25 way COM port D type connector on the EPC Video Output Service Bus Instrument LAN E...

Page 229: ...Requirement Use shielded network cables with the mass spectrometer to ensure compliance with FCC limits To connect the workstation 1 Connect the monitor to the workstation PC 2 Connect the one end of...

Page 230: ...ns 2 are on the mass spectrometer s rear panel these connectors hold the screw terminals for input output signals The connectors are keyed so that they can receive a signal cable inserted only one way...

Page 231: ...vent In 1 ExternalConnections1 Not used CE Interlock OUT Event In 2 Not used IN IN Com N C N O Com N C N O 1 2 3 4 5 6 7 8 9 10 Analogue Out ExternalConnections2 OUT Gas Fail Interlock Not used OUT OU...

Page 232: ...9 CE Interlock Out normally closed N C 30 V d c 100 mA 10 CE Interlock Out normally open N O 30 V d c 100 mA External connections 2 Pin Function Rating 1 Analog Out instrument driven electrical output...

Page 233: ...nctionality The output voltage range is 0 to 2 V The resolution of the voltage output is 12 bits Gas Fail Interlock Out Used to stop the solvent flow if the nitrogen gas supply fails Maximum 30 V 0 5...

Page 234: ...rument 2 Attach the positive and negative leads of the signal cable to the connector 3 Slide the clamp with the bend facing down into the protective shield 4 Insert the clamp and shield with the bend...

Page 235: ...ble into the connection cover position the clamp over the cable leads and tighten the clamp into place with the second self tapping screw 6 Place the second connection cover over the first cover and s...

Page 236: ...wall outlet Connecting the NanoLockSpray source camera The NanoLockSpray source camera is connected to the workstation PC through a USB converter Warning To avoid electrical shock use the SVT type pow...

Page 237: ...need to reinstall the camera driver software If this is the case then Windows presents the Found New Hardware Wizard when you connect the USB Converter Installing the camera driver software 1 In the F...

Page 238: ...B 28 External Connections...

Page 239: ...arning To confirm the integrity of the source exhaust system you must address any safety issues raised by the contents of this Appendix Contents Topic Page Preventing contamination C 2 Items exposed t...

Page 240: ...phases on page C 3 for details about the most common ingredients used to prepare mobile phases Items exposed to solvent Item Material Autotune reservoirs High density polyethylene Corona discharge pi...

Page 241: ...onium formate 10 mM These solvents are not expected to cause any problems with the materials identified in Items exposed to solvent on page C 2 Trap bottle Polypropylene Trap bottle push in fittings N...

Page 242: ...C 4 Materials of Construction and Compatible Solvents...

Page 243: ...rce isolation valve 5 14 collision cell 1 14 combined 2 5 mm Allen wrench and cone extraction tool 5 31 combined APPI APCI source 1 2 compliant solvents C 1 cone gas nozzle cleaning 5 34 connecting Ed...

Page 244: ...ottles 2 4 instrument case cleaning 5 3 5 17 Instrument Console 1 6 IntelliStart Fluidics system 1 2 1 11 installing reservoir bottles 2 4 preparing 2 4 pump purging 2 8 overview 1 2 IntelliStart Flui...

Page 245: ...O ring removal kit 5 17 O rings removing 5 17 P pin plug capillary locator 5 88 plumbing lock mass system 5 108 plumbing sample system 5 116 power LED 2 3 preventing contamination C 2 probes APCI cle...

Page 246: ...connections B 23 Software and data system 1 6 solvent vapor leakage avoiding 5 98 solvents exposure of components to C 2 used in mobile phases C 3 source cleaning 5 3 components cleaning 5 28 enclosur...

Page 247: ...handling 5 19 Waters Quality Parts Locator 5 4 workstation connecting B 19 X Xevo G2 QTof calibration 2 3 emergency shutdown 2 9 leaving ready for operation 2 8 LEDs 2 3 maintenance procedures 5 1 ove...

Page 248: ...Index 6...

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Summary of Contents for Xevo G2 QTof

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