LCQ Fleet Ion Trap LC/MS n Exceptional Analytical Value

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1 m a s s s p e c t r o m e t r y LCQ Fleet Ion Trap LC/MS n Exceptional Analytical Value Part of Thermo Fisher Scientific

2 LCQ Fleet Ion Trap LC/MS n Unbeatable Rapid and Reliable Detection for Every Lab Match your LC separation with the productivity of the LCQ Fleet In today s fast-paced analytical laboratory, your instrument must be easy to use and deliver maximum information with minimum time and sample consumption. With these requirements in mind, Thermo Fisher Scientific, the pioneer in ion trap technology, introduces the LCQ Fleet ion trap mass spectrometer, the latest addition to its award-winning family of ion trap instruments. LCQ Fleet leverages the proven reputation of the LCQ ion trap family for excellent MS n sensitivity, ruggedness and reliability. As the newest member of the LCQ series, this cost effective ion trap mass spectrometer delivers high quality structural information for routine analysis of the most complex samples, on a high-throughput basis. Continuing to set standards for ion trap excellence that address your analytical challenges, the LCQ Fleet is designed to meet your needs, whether they are general analytical chemistry, toxicology screening, drug discovery or proteomics. This reliable and easy to use ion trap mass spectrometer offers exceptional analytical value while providing confident sample analysis. With the Accela High Speed LC System, the LCQ Fleet is the perfect tool for high throughout applications.

3 Intelligent Analysis Stable and easy-to-use Xcalibur software provides automated LC-MS/MS system control and data acquisition for complex sample analysis. Data Dependent Acquisition triggers acquisition of MS n spectra only when a compound of interest is detected Dynamic Exclusion allows acquisition of MS n spectra from lower intensity ion species Automatic Gain Control (AGC) ensures that the ion trap is always filled with the optimum number of ions for any scan type WideBand Activation fragments the water loss ion within an MS/MS spectrum, generating more structurally informative spectra Normalized Collision Energy compensates for the mass-dependent energy deposition in ion trap MS/MS experiments, providing reproducible data from instrument to instrument Pulsed-Q Dissociation (PQD) enables trapping of low mass fragment ions Automated features enable all users, from novice to expert, to easily analyze and interpret sample analysis data. Application-specific software aids data processing and compound identification. Mass Frontier spectral interpretation and classification software to identify unknowns MetWorks automated metabolite identification using spectral trees BioWorks protein identification and quantitation featuring SEQUEST ToxID data processing for general unknown screening SIEVE automated label-free differential expression of proteomics and metabolomics data Technology You Can Trust From the inventors of benchtop LC/MS ion trap technology, the LCQ Fleet is the latest addition to the industry-leading portfolio of Thermo Scientific ion trap mass spectrometers featuring more than twenty-five years in breakthrough technological developments.

4 LCQ Fleet Ion Trap LC/MS n The Solution For Compound Screening and Identification Maximize LC/MS information with rapid and reliable compound detection and structural identification In clinical and forensic toxicology, LC-MS is increasingly used for the detection and identification of unknown xenobiotics in general unknown screening (GUS) studies or systematic toxicological analysis (STA). The inherent capability of the ion trap mass spectrometer to provide structural information using MS n data makes it the preferred instrument for confident identification of unknown compounds. LCQ Fleet is the ideal instrument for the comprehensive and accurate GUS analysis in a high-throughput environment. The benefits of the LCQ Fleet for this application include: High sensitivity and specificity for more accurate results at a lower detection level compared to traditional methods Fast positive/negative switching allows the analysis of more compounds with less sample in less time Standard normalized collisional energy generates reproducible spectra for library searching Proven reliability and ease of use for LC-MS n Confident General Unknown Screening Intelligent Data Dependent acquisition features of the LCQ Fleet enable rapid compound screening for maximum structural information. The fast cycle time and high sensitivity of the LCQ Fleet provide the information necessary to confirm the identity of unknowns in a single analytical run. An automatic library search and retention time confirmation is performed on each fragmentation spectrum, and a one-page summary report is generated for each compound identified. This capability is illustrated for the identification of a group of drugs in plasma, using a general acquisition method consisting of nine scan events with fast positive/negative polarity switch. The LCQ Fleet allows the identification of groups of GUS compounds using library searches in minutes.

5 Identification of Natural Products Robust and fast analysis provides confident structural information Traditional approaches for the analysis of natural products have proven to be time and labor consuming. The LCQ Fleet significantly reduces the need for a lengthy pre-purification process while delivering high quality results. It is especially suited for the routine identification of complex natural products. The benefits include: Reduction or elimination of time-consuming pre-purification steps with the ability to quickly analyze complex samples The fast cycle time of the LCQ Fleet matches the fast LC separation of the Accela High Speed LC, enabling rapid analysis of numerous samples Excellent MS n spectra quality ensures the confident structural characterization and compound identification The Ion Max source delivers outstanding robustness for the most demanding analytical applications Multiple ionization methods, including ESI, APCI, APPI and more, provide maximum flexibility to achieve comprehensive sample information Data can be directly analyzed by Mass Frontier software for compound identification and data reporting In this example, an extract of cinnamon was studied using a fast chromatography LC-MS n analysis. Multiple MS n spectra (up to MS 5 ) were acquired in both positive and negative ionization modes to provide comprehensive structural information of the component of interest. The fragmentation spectra were analyzed using Mass Frontier software, and the corresponding substructures to all the major peaks were assigned automatically as illustrated.

6 LCQ Fleet Ion Trap LC/MS n Complex Proteomics Analysis Confident peptide identification The advancement of proteomics analysis requires high accuracy and more productivity from your experiments. The LCQ Fleet routinely delivers excellent results for complex proteomics study. It has several features that make it well-suited for these applications: Fast scanning resolves co-eluting peptides often present in complex protein digests during real time, on-line LC/MS proteomics analysis High sensitivity enables the detection of trace compounds in a complex mixture High quality MS n spectra provide routine peptide identification with high correlation scores for confident sequence identification Pulsed Q Dissociation (PQD) for the detection of low mass fragments for itraq analysis Fast enhanced scan and zoom scan allow reliable charge states recognition of peptide ions High resolution isolation (HRI) allows accurate MS n analysis without interference from isotopic ions A mixture of protein digests was analyzed using the LCQ Fleet ion trap mass spectrometer. All the proteins were identified via library search using BioWorks with high coverage. Protein % Coverage Apomyoglobin 36 Lysozyme 48 α-lactalbumin 33 Cytochrome C 50 Ovalbumin 15 Bovine serum albumin 34 Carbonic anhydrase 18

7 Product Specifications Hardware Features Ion Max-S API Source Enhanced sensitivity and ruggedness Sweep Gas reduces chemical noise 60 interchangeable ion probe orientation Removable metal ion capillary tube provides vent-free maintenance Options ESI source compatible with liquid flow rates of <1 µl/min to 1 ml/min, without splitting APCI source compatible with liquid flow rates of 50 µl/min to 2 ml/min, without splitting APCI/APPI source compatible with liquid flow rates of 50 µl/min to 2 ml/min, without splitting Metal needle option for high- and low-flow analyses HESI source compatible with liquid flow rates of <1 µl/min to 1 ml/min, without splitting Nanospray II source supports static packed tip and dynamic nanospray experiments, compatible with liquid flow rates of 50 nl/min* to 2 µl/min * Lower limit is dependent on gauge of needle used Transfer Ion Optics Advanced multipole ion guides High stability and ion transmission efficiency Vacuum System Differentially-pumped vacuum system to 10-5 Torr Split-flow turbomolecular pump controls vacuum in three regions High-vacuum machined aluminum analyzer chamber Detection System Patented conversion dynode detector Off-axis continuous dynode electron multipliers with extended dynamic range Digital electronic noise discrimination High-efficiency radial ion ejection Integrated Divert Valve Fully-automated data system control enables user to divert to waste the solvent front, gradient end point and any other portion of the HPLC run User-definable default state of the valve, either to waste or to source Integrated Syringe Pump Syringe Pump allows automated infusion under data system control Software Features Data System Xcalibur processing and instrument control software LCQUAN quantification package Microsoft Office XP software package Microsoft Windows XP operating system High-performance PC with Intel Pentium microprocessor High-resolution LCD color monitor Scan Functions Full-scan feature provides full-scan mass spectra for sensitive analyses and produces spectra for rapid screening of unknown compounds Selected Ion Monitoring (SIM) monitors selected ions for target compound analysis Full-scan MS/MS produces full-scan product ion spectra at sensitivities higher than any ion trap mass spectrometer Selected Reaction Monitoring (SRM) for a traditional LC/MS/MS quantitative analytical experiment MS n for multi-stage MS experiments to probe the structure of ions ZoomScan a high-resolution, full-range scan to resolve isotopic envelopes which is often used for charge state determination of peptides and ionization state determination of organometallics TurboScan an ultra-fast scan to improve signal-to-noise and sampling rate Exclusive Technologies Unique, patented Automatic Gain Control (AGC) ensures that the ion trap is always filled with the optimum number of ions for any scan type Dynamic Exclusion allows acquisition of MS/MS and MS n spectra from lower intensity ion species WideBand Activation generates more structurally informative spectra Normalized Collision Energy compensates for the mass-dependent energy deposition characteristics of ion trap mass spectrometers in MS/MS experiments, providing reproducible data from instrument to instrument Pulsed-Q Dissociation (PQD) enables trapping of low mass fragment ions System Specifications MS/MS Sensitivity Electrospray Ionization (ESI) A loop injection of 2 µl of a 1 pg/µl solution of reserpine (2 picograms, 3.28 picomoles total sample) at a flow of 400 µl/min of 50% isopropyl alcohol/50% water will produce a minimum signal-to-noise ratio of 100:1, for the transition of the isolated protonated molecular ion at m/z 609 to the largest two product ions, 397 and 448, when the mass spectrometer is operated at unit resolution in the full-scan MS/MS mode, scanning the product ion spectrum from m/z Atmospheric Pressure Chemical Ionization (APCI) A loop injection of 2 µl of a 1 pg/µl solution of reserpine (2 picograms, 3.28 picomoles total sample) at a flow of 400 µl/min of 50% isopropyl alcohol/50% water will produce a minimum signal-to-noise ratio of 100:1, for the transition of the isolated protonated molecular ion at m/z 609 to the largest two product ions, 397 and 448, when the mass spectrometer is operated at unit resolution in the full-scan MS/MS mode, scanning the product ion spectrum from m/z Installation Requirements Power One 230 Vac ±10.0%, 15 Amps, 50/60 Hz, single phase, with earth ground dedicated to the instrument 120 or 230 Vac single phase, with earth ground for the data system Gas One high-purity (99% pure, flow rate 15 L/min) nitrogen gas supply for the API source One ultra high-purity helium gas supply (99.998% pure) with less than 1 ppm each of water, oxygen, and total hydrocarbons for the mass analyzer Environment System averages 2300 W (8000 Btu/h) output when considering air conditioning needs Operating environment must be C (59-80 F) and relative humidity must be 40-80% with no condensation Optimum operating temperature is C (65-70 F) Dimensions / Weight MS: 56 cm x 79 cm x 59 cm (h x w x d) MS: ~120 kg Roughing pumps: 38.6 kg Performance Specifications Mass Range m/z m/z m/z Resolution Down to 0.3 FWHM (full width half maximum) with Zoom Scan Scan Power MS n, for n = 1 through 10 Contact Closure Start In/Out Start Out is programmable Analog Inputs One (1) analog Input (0-1 V) One (1) analog Input (0-10 V)

8 Laboratory Solutions Backed by Worldwide Service and Support Tap our expertise throughout the life of your instrument. Thermo Scientific Services extends its support throughout our worldwide network of highly trained and certified engineers who are experts in laboratory technologies and applications. Put our team of experts to work for you in a range of disciplines from system installation, training and technical support, to complete asset management and regulatory compliance consulting. Improve your productivity and lower the cost of instrument ownership through our product support services. Maximize uptime while eliminating the uncontrollable cost of unplanned maintenance and repairs. When it s time to enhance your system, we also offer certified parts and a range of accessories and consumables suited to your application. To learn more about our products and comprehensive service offerings, visit us at In addition to these offices, Thermo Fisher Scientific maintains a network of representative organizations throughout the world. Australia analyze.au@thermo.com Austria analyze.at@thermo.com Belgium analyze.be@thermo.com Canada analyze.ca@thermo.com China analyze.cn@thermo.com Denmark analyze.dk@thermo.com France analyze.fr@thermo.com Germany analyze.de@thermo.com India analyze.in@thermo.com Italy analyze.it@thermo.com Japan analyze.jp@thermo.com Latin America analyze.la@thermo.com Netherlands analyze.nl@thermo.com South Africa analyze.sa@thermo.com Spain analyze.es@thermo.com Sweden / Norway / Finland analyze.se@thermo.com Switzerland analyze.ch@thermo.com UK analyze.uk@thermo.com USA analyze.us@thermo.com Thermo Finnigan LLC, San Jose, CA USA is ISO Certified Thermo Fisher Scientific Inc. All rights reserved. SEQUEST is a registered trademark of the University of Washington; Mass Frontier is a trademark of HighChem, Ltd.; Intel and Pentium are registered trademarks of Intel Corporation; Microsoft and Windows are registered trademarks of Microsoft Corporation; itraq is a trademark of Applera Corporation. All other trademarks are the property of Thermo Fisher Scientific Inc. and its subsidiaries. Specifications, terms and pricing are subject to change. Not all products are available in all countries. Please consult your local sales representative for details. BR62395_05/07M