Key capabilities
- Active Ion Management (AIM+) Technology that includes the QR5 segmented quadrupole mass filter with hyperbolic surfaces, maximizes ion transmission to achieve unprecedented levels of qualitative and quantitative performance
- Real-Time Search enables faster data acquisitions and improved specificity, significantly increasing analytical performance of TMT-based quantification experiments
- Thermo Scientific™ TurboTMT mode improves HRAM MSn acquisition rates in TMT experiments
- Thermo Scientific™ Precursor Fit filter enables precursor ion selection for a defined specificity
- Enhanced Vacuum Technology improves Thermo Scientific™ Orbitrap™ mass analyzer performance
- Improved accumulation and transmission of high molecular weight ions to the ion trap and Orbitrap mass analyzers
- Optional Proton Transfer Charge Reduction (PTCR) simplifies MSn spectra of multiply charged analytes
- Optional High Mass Range MSn (HMRn) mode provides expanded mass range capabilities for comprehensive MSn characterization of intact proteins and protein complexes
- Unique Tribrid architecture includes a quadrupole mass filter, and dual-pressure linear ion trap and Orbitrap mass analyzers, allowing for high acquisition rates to provide maximum experimental flexibility for dissociation and detection of fragment ions
- Improved high-sensitivity atmospheric pressure interface combines a high capacity transfer tube and electrodynamic ion funnel, providing an increased ion flux and lower limits of detection for a wide range of molecules
- Advanced active ion beam guide (AABG) prevents neutrals and high velocity clusters from entering the resolving quadrupole
- Ultra-high-field Orbitrap mass analyzer provides ultra-high resolution and highest acquisition rates
- Acquisition rates of up to 40 and 45 Hz for Orbitrap mass analyzer and linear ion trap MSn experiments, respectively
- Orbitrap resolution up to 500,000 FWHM at m/z 200; optional resolution up to 1,000,000 FWHM
- Large surface area ion trap detector for significantly improved robustness and lifetime
- Full parallelization of MS and MSn analyses with Dynamic Maximum Injection Time
- Synchronous Precursor Selection (SPS) for MSnexperiments
- Optional Compact Electron Transfer Dissociation (ETD)/PTCR ion source based on Townsend discharge with extremely stable anion flux for improved usability and reagent longevity
- Multiple fragmentation techniques: collision-induced dissociation (CID), higher-energy collisional dissociation (HCD), optional ETD (including electron-transfer higher-energy collision dissociation, or EThcD, and electron-transfer collision-induced dissociation, or ETciD) and optional ultraviolet photodissociation (UVPD), available at any stage of MSn with detection in the Orbitrap mass analyzer or linear ion trap analyzer
- Advanced Peak Determination (APD) for improved precursor annotation in data-dependent experiments
- Universal Method maximizes peptide identifications without method optimization when sample concentration is unknown• Intuitive, flexible drag-and-drop instrument method editor simplifies method development and creation of unique analytical workflows
- Extensive method template library
- Thermo Scientific™ AcquireX data acquisition provides all-inclusive, automated small molecule sample profiling on an LC timescale
- Streamlined calibration routines with improved Orbitrap calibration for ions with m/z <200
Hardware features
Active Ion Management (AIM+) Technology
AIM+ technology maximizes ion transmission, from injection to detection, using a novel hardware design for precise management of electrical fields and removal of noise to achieve unprecedented levels of quantitative performance
Ion source
Thermo Scientific™ Ion Max NG™ ion source
- Adjustable heated electrospray ionization (HESI) probe provides ultimate sensitivity
- Flow rates from 1 to 2000 μL/min
- Designed for maximum performance for a broad range of molecular ions
- Enhanced ruggedness
- Sweep gas reduces chemical noise
- Optional APCI probe compatible with liquid flow rates of 50 to 2000 μL/min without splitting; the APCI probe can be upgraded to optional APPI capability
Generation V ion optics
The new API interface consists of a High-Capacity TransferTube (HCTT) and an Electrodynamic Ion Funnel (EDIF) High-capacity ion transfer tube (HCTT)
- The HCTT increases ion flux into the vacuum system for improved sensitivity• Vent-free maintenanceElectrodynamic ion funnel (EDIF)
- EDIF, a radio frequency (RF) device, efficiently captures ions as they leave the HCTT
- Automatic tuning results in broad ion transmission curves with reduced ion losses, increasing sensitivity
Advanced active ion beam guide (AABG)
AABG with an axial field and low-pass filter prevents neutrals and high-velocity clusters from entering the quadrupole mass filter
QR5 segmented quadrupole mass filter with hyperbolic surfaces
Next generation quadrupole mass filter with 5.25 mm field radius delivers industry leading ion transmission across m/z 50–2000 range for efficient precursor selection with 0.4–1200 m/z isolation width
Ion-routing multipole
- Ion storage capabilities
- Higher-energy collisional dissociation (HCD)
- Variable pressure control from 0.5 to 20 mTorr with HMRn option, for small and large molecule workflows
- Efficient and reliable ion transfer between the ion-routing multipole, Orbitrap mass analyzer and linear ion trap mass analyzer
Orbitrap mass analyzer
- Next-generation ultra-high-field Orbitrap mass analyzer
- Low noise detection pre-amplifier
- Automatic calibration of all ion transfer parameters
Modified dual-pressure linear ion trap
- Extended front section of the high-pressure cell for improved ETD and PTCR reaction control
- For precursors between m/z 50 and 1800, isolation widths range from 0.2 to 3000 m/z
- Minimum precursor isolation width for ions with m/z >1800between 2 m/z at m/z 1800 and up to 100 m/z at m/z8000, with a maximum precursor isolation width of 4000 m/z
- Collision-induced dissociation (CID)
- ETD/EThcD/ETciD and UVPD fragmentation techniques
- PTCR ion-ion reaction
- Low pressure cell for improved scan rates, resolving power, and mass accuracy
- Dual-dynode detector with high linear dynamic range for improved quantification, and a large surface area for increased lifetime and robustness
Vacuum system
- Split-flow turbomolecular pump provides vacuum in three regions• Stainless steel and aluminum high-vacuum analyzer chambers
- Enhanced vacuum technology reduces the pressure in the ultra-high vacuum region to <10-10 Torr
- Improved Orbitrap mass analyzer performance at a wider range of collision gas settings
Analog inputs
Channel 1 analog input (0–10 V); Channel 2 analog (0–2 V)
Optional hardware
Thermo Scientific™ NanoSpray Flex NG™ ion source
- Supports static and dynamic electrospray experiments• Compatible with liquid flow rates of 50 nL/min to 2 μL/minThermo Scientific™ EASY-Spray™ ion sourceMaximum nanoelectrospray performance with no need for adjustments
Thermo Scientific™ EASY-ETD™ ion source
- Generates fluoranthene anions for ETD
- Townsend discharge provides extremely stable and robust ionization
- Compact size, located entirely within the footprint of the instrument
- Active reagent ion filtering using the quadrupole mass filter
- Charge-state dependent calibration of reaction time to maximize spectral quality
- Improved dynamic range and signal-to-noise ratio (S/N) for fragments using high dynamic range EASY-ETD HD
Thermo Scientific™ PTCR ion source
- Extension of the EASY-ETD ion source
- Generates perfluoroperhydrophenanthrene (PFPP) ions for subsequent gas-phase ion-ion reactions
- Simplifies interpretation of complex spectra by decreasing the charge state of precursors and/or product ions
Thermo Scientific™ EASY-IC™ ion source
- Generates internal calibrant ions for real-time mass calibration of spectra in positive and negative modes
- Provides <1 ppm RMS drift over 24 hours, measured with Flex MixThermo Scientific™ UVPD ion source
- Includes a Class 1, 213 nm CryLaS laser system with 2.5 kHz repetition rate, delivering >1.2 μJ per pulse
- Performs dissociation of precursors at any stage of MSn, with detection in either the ion trap or Orbitrap mass analyzers
- Compact size, located entirely within the footprint of the instrument
Thermo Scientific™ 1M
Enables mass measurements at ultra-high resolution of 1,000,000 FWHM at m/z 200
Thermo Scientific™ FAIMS Pro™ interface
- Performs online gas-phase fractionation based on differential ion mobility• Optimized performance for 100 to 1000 nL/min flow rates
High Mass Range with MSn (HMRn)
- Extends the mass range to m/z 8000 for detection of precursor and product ions in the Orbitrap mass analyzer
- Precursor ion isolation from m/z 2000 to 8000 using the linear ion trap
- MSn, n = 1 through 10 using any available fragmentation technique
Software features
Data system
- High-performance PC with Intel® microprocessor
- High-resolution LED color monitor
- Microsoft® Windows® 10 operating system
Thermo Scientific™ Xcalibur™ software
- Xcalibur software is the control software for the next-generation Thermo Scientific mass spectrometer portfolio
- Accelerates familiarization and reduces training needs
Orbitrap Eclipse MS instrument control software
- Tune application for instrument calibrations and checks, diagnostics, and manual data acquisition
- Method Editor with a comprehensive application-specific template library, method setup supported by tooltips, and a drag-and-drop user interface to facilitate method development
Optional software
Thermo Scientific™ Proteome Discoverer™software
Flexible, expandable platform for the qualitative and quantitative analysis of proteomics data
ProSightPD™ software
Processing node within Proteome Discoverer software that allows execution of ProSight searches of top-down and middle-down data
Thermo Scientific™ ProSightPC™ software
Stand-alone software for analyzing top-down, middle-down, and bottom-up data
Thermo Scientific™ BioPharma Finder™ software
Integrated solution for protein-based biotherapeutic analysis through molecular and sub-structural data processing utilizing deconvolution and predictive fragmentation pattern algorithms
Thermo Scientific™ Compound Discoverer™software
Platform for small-molecule structural identification, qualitative, and quantitative data analysis
Operation modes
Top Speed mode
Maximizes the number of high-quality MSn spectra in each cycle by intelligently scheduling MS and data-dependent MSn scans based on a user-defined time between adjacent survey spectra
TopN mode
Enables a user-defined maximum number of high-quality MSn spectra from each cycle
Dynamic maximum injection time
Maximizes the amount of high-quality data acquired by synchronizing operation of the quadrupole mass filter, ion-routing multipole, and linear ion trap and Orbitrap mass analyzers
Advanced Peak Determination (APD)
Precursor annotation algorithm for improved charge state assignment to increase the number of precursors available for data-dependent analysis
Exclusive technologies
Dynamic scan management
Enables intelligent, real-time scheduling, parallelization, and prioritization of acquisition events, and selection, sorting, and routing of precursors to different fragmentation modes and analyzers based on user-selected parameters, including precursor m/z, intensity, and/or charge
Multiple dissociation options
Precursor dissociation can be performed in the ion-routing multipole (HCD), the linear ion trap (CID, optional ETD/ETciD, optional UVPD) or both (optional EThcD), with product ion detection in the linear ion trap or Orbitrap mass analyzers at any stage of MSn analysis
Automatic gain control
Ensures that the ion-routing multipole is always filled with the optimum number of ions for any acquisition type
Proton transfer charge reduction option
Performs ion-ion reaction to reduce charge states of selected precursors or product ions and can be applied at any stage of MSn analysis
Real-Time Search
Searches user-defined database in real time to then select identified/or not identified precursors for further MSn experimentation. Example: Selection of identified precursors for SPS MS3 quantitation increases the accuracy and proteome coverage of TMT experiments.
TurboTMT mode
Novel processing mode powered by Phase-Constrained Spectrum Deconvolution Method (φSDM) designed to improve the acquisition rate of TMT experiments
Precursor Fit filter
Allows selection of precursors with defined specificity
Advanced data-dependent experiments
TMT SPS MS3 aided by Real-Time Search
TMT SPS MS3 experiment with real-time protein database search to perform SPS MS3 only on identified precursors
Universal method
Powered by Dynamic Maximum Injection Time, ensures the best results from samples with unknown concentrations
Product ion triggered-MSn
Fragment ion or neutral loss-triggered MSn experiment, including at the same MSn level
Isolation offset
Custom centering of the precursor isolation window, optimized for broad isotopic distributions
Quanfirmation workflow
Synchronous acquisition of HRAM SIM with full scan MS/MS in the linear ion trap for precursor identity confirmation
SureQuant internal standard (IS) targeted protein quantitation workflow
Novel PRM experiment that leverages internal standards to guide and automatically maximize outcomes and data quality for real-time targeted proteomics analysis
