California TOF/QTOF Users Meetings: MS Settings. Jim Lau, Agilent Technologies.

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1 California TOF/QTOF Users Meetings: MS Settings Jim Lau, Agilent Technologies.

2 Data Acquisition Overview How to Improve Performance Optimize Source Parameters: Drying Gas Temperature, Gas Flow, and Neb - LC Condition and Compound Dependent Fragmenter Voltage - Compound Dependent Optimize Ion Transmission in over the Mass Range QTOF For Low Mass Analytes < 200 Change Quad Amu Gain to 100 TOF/QTOF Fragmentor Review How to Calibrate/Tune Q(TOF) Optimize Acquisition Scan the Proper Mass Range Saturation and Acquisition Mode Set the Proper Acquisition Rate for Chromatographic Peaks Agilent Users Meeting September 17th, 2008

3 Optimization of ESI Source Parameters non-ion Funnel TOF/QTOF VCap Drying Gas - Entrance of the Capillary, 2000 to 4500V / 5000VMAb (3500V) Pos, (3000V) Neg Dependent on compound and MW Concentrated samples (µg/µl) lower VCap Dependent on LC flow rate L/min Gas Temp - Start at high temperature work down-usually C Skimmer - Fragmentor- Sheath Gas- Voltage on skimmer and lens after capillary 65V Not Same as QQQ/Quad, Compound Dependent Vary fragmentor/scan (30V steps) 100V to 240V FIA with Injection Program Dependent on LC flow rate L/min Agilent Users Meeting September 17th, 2008

4 Shields Up!

5 Dual ESI Source Schematic

6 Electrospray Spray Chamber Settings Nebulizer Pressure HPLC Flow Rate (µ/min) Nebulizer Pressure (psi) Drying Gas Flow (l/min) Drying Gas Temp ( C) Vcap Drying Gas Flow high water needs higher flow if too low, spikes in spectra from droplets, dirty cap Drying Gas Temperature and Flow Fragmentor Drying Gas Temperature higher for low vapor pressure solvents Usually C Vcap optimize with FIA ( ) start with 3000 V in negative mode, look for high chamber current or blue glow (indicates corona): reduce Vcap if this happens

7 APCI Spray Chamber Settings Nebulizer Pressure HPLC Flow Rate (µl/min) Nebulizer Pressure (psi) Drying Gas Flow (l/min) Drying Gas Temp ( o C) Corona current Drying gas Temperature and Flow Heater Vcap Fragmentor *-13* 350 * Use enough dry gas, but don t remove reagent APCI Vap Temp ( o C) Corona Current (na) (pos) & 20,000 (neg) 3500 Capillary Voltage (V)

8 Overview of the Multimode Source Corona needle IR APCI Zone HPLC inlet Nebulizer ESI Zone Thermal container Capillary To convert a method developed with any other source, all that is needed is to go to method and run control and change the Method spray chamber to MM-ES+APCI. Spray chamber values will be the same as for APCI Drying gas

9 Multimode Spray Chamber Settings HPLC inlet Nebulize r Mode Nebulizer Pressure (psi) Drying Gas Flow (l/min) Drying Gas Temp ( o C) APCI Zone ESI Zone Thermal container APCI ESI Corona needle Dryin g gas Capillary APCI/ESI Vap Temp ( o C) 150(ESI) 250(APCI) Corona Current APCI (na) 4000 (pos) & 20,000 (neg) 3500 Capillary Voltage (V)

10 Agilent Jetstream Technology (AJT) source Non-ion funnel small molecule Nebulizing gas: pressure *Sheath gas: flow and temperature *Nozzle voltage Parameter Starting Conditions Nebulizer pressure Drying gas flow Drying gas temp Sheath gas flow Agilent Jetstream Pos/Neg psi LPM 275 C/325 C LPM The super-heated sheath gas collimates the nebulizer spray and presents more ions to the MS inlet. Drying gas: flow and temperature Capillary voltage Nozzle voltage (AJT) 3500V/3000V 0V/1500V Pos - low/neg - higher Fragmentor voltage Resistive sampling capillary entrance: Capillary V Resistive sampling capillary exit: FragV (cpd-dependent) V QTOF/TOF *New parameters unique to AJT source 12

11 Drying Gas Experiment on Agilent Jet Stream Source 5l/min

12 Drying Gas Experiment on Agilent Jet Stream Source 8l/min

13 Drying Gas Experiment on Agilent Jet Stream Source 10l/min

14 Drying Gas Experiment on Agilent Jet Stream Source at 12l/min

15 Drying Gas Experiment on Agilent Jet Stream Source 12l/min Note: a Higher Vcap increases High m/z response

16 Agilent Jetstream Technology (AJT) source Non-ion funnel intact protein Nebulizing gas: pressure *Sheath gas: flow and temperature Parameter Starting Conditions Nebulizer pressure Drying gas flow Agilent Jetstream Pos/Neg 55 psi 10 LPM *Nozzle voltage The super-heated sheath gas collimates the nebulizer spray and presents more ions to the MS inlet. Resistive sampling capillary entrance: Capillary V Drying gas: flow and temperature Resistive sampling capillary exit: FragV Drying gas temp 350 C Sheath gas flow LPM Capillary voltage V Nozzle voltage (AJT) 2000V Fragmentor voltage V QTOF, TOF (cpd-dependent) *New parameters unique to AJT source Note that quad amu will need to be increased amu with old quad drive in quad tuning parameters for QTOF 18

17 Agilent Jetstream Technology (AJT) source Ion funnel intact protein Nebulizing gas: pressure *Sheath gas: flow and temperature Parameter Starting Conditions Nebulizer pressure Drying gas flow Agilent Jetstream Pos/Neg 55 psi 15LPM *Nozzle voltage The super-heated sheath gas collimates the nebulizer spray and presents more ions to the MS inlet. Drying gas: flow and temperature Drying gas temp 250 C Sheath gas flow 12 LPM Sheath gas temp Capillary voltage V Nozzle voltage (AJT) 2000V Resistive sampling capillary entrance: Capillary V Resistive sampling capillary exit: Fragmentor voltage (cpd-dependent) NA *New parameters unique to AJT source Note that quad amu will need to be increased amu with old quad drive in quad tuning parameters for QTOF 19

18 Agilent Jetstream Technology (AJT) source Ion funnel small molecule Nebulizing gas: pressure *Sheath gas: flow and temperature *Nozzle voltage Parameter Starting Conditions Nebulizer pressure Drying gas flow Drying gas temp Sheath gas flow Agilent Jetstream Pos/Neg psi 15-17LPM C LPM The super-heated sheath gas collimates the nebulizer spray and presents more ions to the MS inlet. Drying gas: flow and temperature Sheath gas temp Capillary voltage C 3500V/2500V Nozzle voltage (AJT) 0-500V/ V Resistive sampling capillary entrance: Capillary V Resistive sampling capillary exit: Fragmentor voltage (cpd-dependent) NA *New parameters unique to AJT source 20

19 APCI source Ion funnel small molecule Nebulizer Pressure Parameter Starting Conditions Nebulizer pressure Agilent Jetstream Pos/Neg psi Corona current Heater Drying gas flow Drying gas temp 14-15LPM C Vcap Vap Temp Sheath gas temp C NA Capillary voltage 3500V/2000V Chamber current 35 µa Drying gas Temperature and Flow Fragmentor Fragmentor voltage (cpd-dependent) NA 21

20 Ion Funnel Settings for Different Applications 6550Tune very small molecule (m/z <120) and fragile adduct 6490 Tune generic small molecule 6490 Tune Fragile Compound and Adduct 6550 Tune (default) 6550 Tune Peptide/Protein 6550 Generic small molecule 6490 Tune (default) Funnel DC HP Funnel Voltage Drop HP Rf Voltage LP Funnel Voltage Drop LP Rf Voltage Fragmenter to 175 Fragmentor to 325 Quad amu 100 Quad amu 120 These are suggested starting funnel parameters and will need optimization. Settings can be very analyte specific. They can be used as is should a user need to find out very quickly if it is worth the time to optimize the parameters further. These parameters may not be the same as listed from other sources that have been optimized for a particular analyte or class of analytes.