Agilent Technologies 6490 Manual

Agilent Technologies

Agilent 6400 Series

Triple Quadrupole

LC/MS System

Concepts Guide

The Big Picture

2 Agilent 6400 Series Triple Quad LC/MS Concepts Guide

Notices

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Manual Part Number

G3335-90135

Edition

Revision A, November 2012

Printed in USA

Agilent Technologies, Inc.

5301 Stevens Creek Blvd.

Santa Clara, CA 95051

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Software Revision

This guide applies to the Agilent

MassHunter Workstation Software -- Data

Acquisition for 6400 Series Triple Quadru-

pole program version B.06.00 or higher until

superseded.

If you have comments about this guide,

please send an e-mail to

feedback_lcms@agilent.com.

Agilent 6400 Series Triple Quad LC/MS Concepts Guide 3

In This Guide...

The Concepts Guide presents “The Big Picture” behind the

operation of the Agilent 6400 Series Triple Quadrupole LC/MS

System by helping you understand how the hardware and

software work.

1 Overview

Learn how the Agilent 6400 Series Triple Quadrupole helps you

do your job.

2Inner Workings – Triple Quadrupole MS versus Single

Quadrupole MS

Learn the concepts you need to understand how the Agilent

triple quadrupole mass spectrometer works.

3Agilent Triple Quadrupole MS and Sensitivity

Learn how the Agilent triple quadrupole mass spectrometer

achieves high sensitivity.

4Agilent MassHunter Workstation Software - Data Acquisition for

6400 Series Triple Quadrupole

Learn concepts behind the design of the Agilent MassHunter

Workstation Software - Data Acquisition for Triple Quadrupole

program.

4 Agilent 6400 Series Triple Quad LC/MS Concepts Guide

Agilent 6400 Series Triple Quad LC/MS Concepts Guide 5

Contents

1 Overview 7

What kind of system do you have? 8

Help for applications 9

Help for acquisition 10

Help for data analysis 11

2 Inner Workings – Triple Quadrupole MS versus Single Quadrupole

MS 13

Single quadrupole MS operation 14

Design for a single quadrupole mass spectrometer 14

How a single quadrupole mass spectrometer works 15

Triple quadrupole MS operation 21

Design of the Agilent Triple Quadrupole MS 21

Innovative Enhancements in the 6490 Triple Quadrupole 23

Innovative Enhancements in the 6460 Triple Quadrupole 25

Innovative Enhancements in the 6430 Triple Quadrupole 27

Innovative Enhancements in the 6420 Triple Quadrupole 27

How a triple quadrupole mass spectrometer works 27

How Dynamic MRM works 30

How Triggered Dynamic MRM works 33

3 Agilent Triple Quadrupole MS and Sensitivity 39

How the Agilent Triple Quadrupole MS improves sensitivity 40

Noise reduction 40

Example of chemical noise reduction 43

Linearity of the Agilent 6400 Series Triple Quadrupole MS 45

How each component works to improve sensitivity 46

6 Agilent 6400 Series Triple Quad LC/MS Concepts Guide

Agilent iFunnel Technology 46

Agilent Jet Stream Technology 47

LC/MS ion sources 49

Front-end ion optics 55

Collision cell 57

Detector 62

Pumping system 63

4 Agilent MassHunter Workstation Software - Data Acquisition for

6400 Series Triple Quadrupole 65

Tuning 67

Acquisition 69

Agilent Technologies

Agilent 6400 Series Triple Quadrupole LC/MS System

Concepts Guide

Overview

What kind of system do you have? 8

Help for applications 9

Help for acquisition 10

Help for data analysis 11

This chapter provides an overview of the Agilent 6400 Series

Triple Quadrupole LC/MS components and how they help get

the job done.

8 Agilent 6400 Series Triple Quad LC/MS Concepts Guide

1Overview

What kind of system do you have?

You can set up an Agilent 6400 Series Triple Quadrupole LC/MS in

several configurations:

ESI – Electrospray Ionization

APCI – Atmospheric Pressure

Chemical Ionization

APPI - Atmospheric Pressure

Photo Ionization

HPLC-Chip/MS – High Performance

Liquid Chromatography on a Chip

MMI - Multimode Ionization

•For normal flow LC/MS with a binary pump, quaternary pump,

well-plate sampler (or autosampler or CTC PAL autosampler).

The supported ion sources are ESI, APCI, APPI, and MMI.

•For microflow LC/MS with a capillary pump, micro well-plate

sampler (or CTC PAL micro-plate autosampler) and ESI, APCI or

MMI ion sources

•For nanoflow LC/MS with a nanoflow pump, capillary pump,

micro well-plate sampler and HPLC-Chip/MS interface (used

in place of a standard nanospray source) to increase

reliability and boost performance with narrow peak

dispersion and lower dead volumes.

Each Agilent combination has advantages for different

applications. Each uses the same Data Acquisition program,

Quantitative Analysis program and Qualitative Analysis

program to enable these advantages.

The Agilent 6460 and 6490 Triple Quadrupole LC/MS systems

are the only Triple Quadrupole that can use the Agilent Jet

Stream Technology. This technology utilizes a super-heated

sheath gas to collimate the nebulizer spray which dramatically

increases the number of ions that enter the mass spectrometer.

The Agilent 6490 Triple Quadrupole LC/MS system also utilizes

the iFunnel Technology which includes the Agilent Jet Stream

Technology, shorter desolvation assembly with Hexabore

Capillary, and the Dual Offset Ion Funnel.

Overview 1

Help for applications

Agilent 6400 Series Triple Quad LC/MS Concepts Guide 9

Help for applications

You can use one or more of the Agilent 6400 Triple Quadrupole

LC/MS combinations to quantitate trace organic compounds in

complex matrices:

•Food safety studies

•Environmental studies

•Drug discovery

•Toxicology

•Forensics

•Bioanalysis

Paired with Agilent’s 1260 and 1290 Infinity Series LCs, the

6400 Series Triple Quadrupole MS delivers sensitive,

reproducible analyses of target compounds in complex

matrices.

•Femtogram-level limits of detection and quantitation for the

6430 and 6460

•Zeptomole-level limits of detection and quantitation for the

6490

The dwell time is the amount of

time allotted for analyzing

each ion during a scan.

•Minimized memory effects even at very short dwell times

•Simplified operation with Agilent’s data analysis software

10 Agilent 6400 Series Triple Quad LC/MS Concepts Guide

1Overview

Help for acquisition

To help you use the Agilent Triple Quadrupole LC/MS for these

applications, the software lets you do these tasks in a single

window with the Data Acquisition Program:

Prepare the instrument

To learn how to install the Agilent

Triple Quadrupole LC/MS, see the

Installation Guide.

To learn how to get started with the

Agilent Triple Quadrupole LC/MS,

see the Quick Start Guide.

To learn more about how to use the

Agilent Triple Quadrupole LC/MS

with real samples and data, see the

Familiarization Guide

To learn how to do individual tasks

with the LC/MS, see the online

Help.

To learn more about an Agilent

1260 or 1290 Infinity LC module,

see the Agilent 1260 or 1290

Infinity LC User’s Guide for the

module.

•Start and stop the instruments from the software

•Download settings to the Agilent 1260 or 1290 Infinity LC

and the Agilent 6400 Series Triple Quadrupole mass

spectrometer in real time to control the instrument

•Evaluate if the MS parameters are within the limits to

produce the specified mass accuracy and resolution with

aChecktune report

•Optimize MS parameters automatically (Autotune) or

manually through Agilent tuning programs and print an

Autotune report

•Monitor the actual conditions of the instrument

•View the real-time plot for chromatograms and instrument

parameters (both UV/Vis and MS) and print a real-time plot

report

•View the centroided line spectrum of a peak or the mass

range profile spectrum of a peak in real time

Set up acquisition methods

•Enter and save parameter values for all LC modules and the

MS to an acquisition method

•Select and label the total ion chromatograms or extracted ion

chromatograms that you want to appear in the real-time plot

•Set up time segments for each scan type and analysis where

parameters change with the time segment or with the scans

within the time segment

•Print an acquisition method report

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