Agilent Technologies 6475 User manual

Agilent 6475 Triple Quad LC/MS System
User Guide

Notices
Document Identification
DocNo D0025685
DE22440912
October 2022
Copyright
© Agilent Technologies, Inc. 2022
No part of this manual may be
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(including electronic storage and retrieval
or translation into a foreign language)
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as governed by United States and
international copyright laws.
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5301 Stevens Creek Blvd.
Santa Clara, CA 95051
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including but not limited to the implied
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for a particular purpose. Agilent shall not
be liable for errors or for incidental or
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of this document or of any information
contained herein. Should Agilent and the
user have a separate written agreement
with warranty terms covering the
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Software Documentation).
Safety Notices
CAUTION
A CAUTION notice denotes a
hazard. It calls attention to an
operating procedure, practice, or
the like that, if not correctly
performed or adhered to, could
result in damage to the product or
loss of important data. Do not
proceed beyond a CAUTION
notice until the indicated
conditions are fully understood
and met.
WARNING
A WARNING notice denotes a
hazard. It calls attention to an
operating procedure, practice, or
the like that, if not correctly
performed or adhered to, could
result in personal injury or death.
Do not proceed beyond a
WARNING notice until the
indicated conditions are fully
understood and met.
Software Revision
This guide is valid for MassHunter 12.0,
until superseded.
Instrument Manufacturing
Manufactured by Agilent
Technologies Singapore Pte. Ltd.
No. 1 Yishun Avenue 7, Singapore
768923
Operating Temperature
Operating Temperature: 15°C to 35°C
Storage Temperature: -40°C to 70°C

Agilent 6475 Triple Quad LC/MS System User Guide 3
Content
1AboutthisSystem 6
Sustainability Information 7
Packaging End-of-Life 7
Product End-of-Life 7
Agilent Regulatory Compliance Statement 8
CE Compliance 8
UK Compliance 9
Electromagnetic Compatibility 10
EMC Declaration for South Korea 11
Detachable Power Cord Declaration for Japan 11
Sound Emission Certification for Federal Republic of Germany 11
Waste Electrical and Electronic Equipment (WEEE) Directive 12
Technical Support 13
Agilent Community 13
2 Hardware Overview 14
6475A LC/TQ 15
Front view 15
Calibrant Delivery System 16
Side view 17
Instrument Status Indicator Lights 18
Instrument Status Indicators in Data Acquisition 19
Modes of Operation 20
ON mode 20
OFF mode 20
Standby mode 21
Ion Sources 22
Agilent Jet Stream (AJS) source 23
Electrospray Ionization (ESI) source 24
Atmospheric Pressure Chemical Ionization (APCI) source 25
Multimode Ionization (MMI) source 26

Content
Agilent 6475 Triple Quad LC/MS System User Guide 4
3Tuning 27
About Tuning 28
Autotune and Checktune 28
Starting the Instrument 29
Calibrating the LC/TQ (Checktune) 30
Calibrating the LC/TQ (Autotune) 31
Generating a Detailed Tune Report 32
Customizing the Actuals Window 33
Scheduling a Checktune 34
Scheduling an Autotune 35
Monitoring Baseline and Adjust Plot 36
Adjusting the plot in any of the following ways: 36
Fixing Spray Stability EMF 37
4 Basic Operation 38
Starting Up and Shutting Down the Instrument 39
Starting in Standby mode 39
Turning off the instrument 39
Starting the Data Acquisition Software 41
Data Acquisition Windows 42
Preparing the LC Modules 46
Preparing the Triple Quad LC/MS 50
Performing a Checktune or Autotune 50
Switching LC stream to MS 50
Monitoring MS baseline and spectral displays 50
Viewing the system logbook for events and errors 51

Content
Agilent 6475 Triple Quad LC/MS System User Guide 5
Setting Up and Running an Acquisition Method 52
Reviewing Results with Qualitative Analysis 58
Analyzing Data with Quantitative Analysis 59
5 Maintenance 60
Routine Tasks 61
Calibrant Delivery System and Divert Value 61
Sources 62
Nebulizer 65
Periodic Tasks 66
Calibrant Delivery System and Divert Value 66
Sources 67
Nebulizer 73
Corona Needle 78
Ion Injector 80
Rough Pump 83
Disinfection 89

Agilent 6475 Triple Quad LC/MS System User Guide 6
1AboutthisSystem
Sustainability Information 7
Agilent Regulatory Compliance Statement 8
Technical Support 13

1AboutthisSystem
Sustainability Information
Agilent 6475 Triple Quad LC/MS System User Guide 7
Sustainability Information
Packaging End-of-Life
The Agilent 6475 triple quadrupole LC/MS system is packaged using cardboard
and a polyethylene bag. In the US, the cardboard is readily recyclable; while the
plastic bag is recyclable, the infrastructure is not available in the majority of the
market. In the US, Agilent is enrolled in the How2Recycle program to facilitate the
communication of material recycling instructions. In select countries, Agilent
participates in the EU/UK Green DOT Package Recycling Program to support the
take-back and responsible management of the packaging materials at their
end-of-life. In the remaining EU countries, the cardboard is readily recyclable
while the plastic bag is recycled, landfilled or incinerated depending on the
country and its available infrastructure.
Product End-of-Life
Agilent offers a take-back program for its 6475 triple quadrupole LC/MS system
customers in US, EU and UK markets.

1AboutthisSystem
Agilent Regulatory Compliance Statement
Agilent 6475 Triple Quad LC/MS System User Guide 8
Agilent Regulatory Compliance Statement
CE Compliance
Your Agilent instrument has been designed to comply with the requirements of
the applicable directives of the European Union, such as Electromagnetic
Compatibility (EMC) Directive, Low Voltage Directive (LVD), Machinery Directive
(MD), RoHS Directive, etc.
Agilent has confirmed that each product complies with the relevant Directives by
testing samples against the harmonized EN (European Norm) standards
published on the Official Journal of the European Union (OJEU).
Proof that a product complies with these directives is indicated by:
•the CE Marking appearing on the rear of the product, and
•the documentation package that accompanies the product containing a copy
of the Declaration of Conformity. The Declaration of Conformity is the legal
declaration by Agilent that the product complies with the relevant directives
listed above, and shows the EN standards to which the product was tested to
demonstrate compliance.

1AboutthisSystem
UK Compliance
Agilent 6475 Triple Quad LC/MS System User Guide 9
UK Compliance
Your Agilent instrument has been designed to comply with the requirements of
the applicable regulations of the United Kingdom, such as The Electromagnetic
Compatibility Regulations 2016, The Electrical Equipment (Safety) Regulations
2016, The Supply of Machinery (Safety) Regulations 2008, The Restriction of the
Use of Certain Hazardous Substances in Electrical and Electronic Equipment
Regulations 2012, etc.
Agilent has confirmed that each product complies with the relevant Regulations
by testing samples against the designated standards published on GOV.UK.
Proof that a product complies with these regulations is indicated by:
•the UKCA Marking appearing on the rear of the product, and
•the documentation package that accompanies the product containing a copy
of the Declaration of Conformity. The Declaration of Conformity is the legal
declaration by Agilent that the product complies with the relevant regulations
listed above, and shows the designated standards to which the product was
tested to demonstrate compliance.

1AboutthisSystem
Electromagnetic Compatibility
Agilent 6475 Triple Quad LC/MS System User Guide 10
Electromagnetic Compatibility
This product conforms to the following regulations on Electromagnetic
Compatibility (EMC) and Radio Frequency Interference (RFI):
•CISPR 11/EN 55011: Group 1, Class A
•EC/EN 61326-1
•AUS/NZ
•Canada ICES-001 (This ISM device complies with Canadian ICES-001. Cet
appareil ISM est conforme à la norme NMB-001 du Canada).
Group 1 ISM equipment Group 1 contains all Industrial, Scientific and Medical
(ISM) equipment in which there is intentionally generated and/or used
conductively coupled radio- frequency energy which is necessary for the internal
functioning of the equipment itself.
Class A equipment This equipment is suitable for use in all establishments
other than domestic and those directly connected to a low voltage power supply
network which supplies buildings used for domestic purposes.
This device complies with the requirements of CISPR11, Group 1, Class A as
radiation professional equipment. Therefore, there may be potential difficulties in
ensuring electromagnetic compatibility in other environments, due to conducted
as well as radiated disturbances.
If this equipment does cause harmful interference to radio or television reception,
which can be determined by turning the equipment off and on, the user is
encouraged to try one or more of the following measures:
1Relocate the radio or antenna.
2Move the device away from the radio or television.
3Plug the device into a different electrical outlet, so that the device and the
radio or television are on separate electrical circuits.
4Make sure that all peripheral devices are also certified.
5Make sure that appropriate cables are used to connect the device to
peripheral equipment.
6Consult your equipment dealer, Agilent Technologies, or an experienced
technician for assistance.
Changes or modifications not expressly approved by Agilent Technologies could
void the user’s authority to operate the equipment.

1AboutthisSystem
EMC Declaration for South Korea
Agilent 6475 Triple Quad LC/MS System User Guide 11
EMC Declaration for South Korea
사용자안내문
This equipment has been evaluated for its suitability for use in a commercial
environment. When used in a domestic environment, there is a risk of radio
interference.
이 기기는 업무용 환경에서 사용할 목적으로 적합성평가를 받은 기기로
서 가정용 환
경에서 사용하는 경우 전파간섭의 우려가 있습니다 .
※ 사용자 안내문은 " 업무용 방송통신기자재 " 에만 적용한다 .
Detachable Power Cord Declaration for Japan
電源 コ ー ド セ ッ ト の取扱い に つ い て （⽇本国内向け ）
製品に は、 同梱 さ れ た電源 コ ー ド セ ッ ト を お使い く だ さ い。 同梱 さ れ た電源
コードセット
は、 他の製品で は使⽤で き ま せ ん。
Notice - The power cords for Japanese market
Your product must only use the power cord that was shipped with this product.
Do not use this power cord with any other product.
Sound Emission Certification for Federal Republic of
Germany
Sound pressure
Sound pressure Lp < 70 dB(A) according to DIN EN ISO 7779.
Schalldruckpegel
Schalldruckpegel LP < 70 dB(A) nach DIN EN ISO 7779.

1AboutthisSystem
Waste Electrical and Electronic Equipment (WEEE) Directive
Agilent 6475 Triple Quad LC/MS System User Guide 12
Waste Electrical and Electronic Equipment (WEEE)
Directive
This product complies with the European WEEE Directive marking requirements.
The affixed label indicates that you must not discard this electrical/electronic
product in domestic household waste.
NOTE
Do not display of in domestic household waste.
To return unwanted products, contact your local Agilent office or see
https://www.agilent.com for more information.

1AboutthisSystem
Technical Support
Agilent 6475 Triple Quad LC/MS System User Guide 13
Technical Support
To find your local sales and support contact, visit the following page:
https://www.agilent.com/en/contact-us/page
For technical support, visit the following page:
https://www.agilent.com/en/support
Agilent Community
To get answers to your questions, join over 10,000 users in the Agilent
Community. Review curated support materials organized by platform
technology. Ask questions to industry colleagues and collaborators. Get
notifications on new videos, documents, tools, and webinars relevant to your
work.
https://community.agilent.com

Agilent 6475 Triple Quad LC/MS System User Guide 14
2 Hardware Overview
6475A LC/TQ 15
Instrument Status Indicator Lights 18
Instrument Status Indicators in Data Acquisition 19
Modes of Operation 20
Ion Sources 22

2 Hardware Overview
6475A LC/TQ
Agilent 6475 Triple Quad LC/MS System User Guide 15
6475A LC/TQ
Front view
Figure 1. Front view of 6475A LC/TQ
Ion source
Service panel
Power switch
Front cover
Status
indicator
CDS bottle
Serial
number

2 Hardware Overview
Calibrant Delivery System
Agilent 6475 Triple Quad LC/MS System User Guide 16
Calibrant Delivery System
Figure 2. Calibrant delivery system
LC flow inlet Selection valve
Leak
sensor
CDS bottle Solenoid valve

2 Hardware Overview
Side view
Agilent 6475 Triple Quad LC/MS System User Guide 17
Side view
Figure 3. Side view of 6475A LC/TQ
Line voltage
12.5 amp fuses
(main electronic
power supply)
Circuit
breaker
Remote
start
LAN

2 Hardware Overview
Instrument Status Indicator Lights
Agilent 6475 Triple Quad LC/MS System User Guide 18
Instrument Status Indicator Lights
Table 1 Status indicator lights on instrument
Instrument State = BOOTING (FPGA Loaded)
Status LED = Blinking Yellow
Power Switch LED = Yellow
Instrument State = ACQUISITION
Status LED = Blinking Green
Power Switch LED = Green
Instrument State = BOOTING (LINUX Loaded)
Status LED = Yellow
Power Switch LED = Green
Instrument State = FAULT
Status LED = Red
Power Switch LED = Green
Instrument State = PUMPING DOWN
Status LED = Blinking Yellow
Power Switch LED = Green
Instrument State = VENTING
Status LED = Blinking Red
Power Switch LED = Yellow
Instrument State = STANDBY
Status LED = Yellow
Power Switch LED = Green
Instrument State = Vented
Status LED = Red
Power Switch LED = Yellow
Instrument State = IDLE
Status LED = Yellow
Power Switch LED = Green
Instrument State = POWERING
DOWN
Status LED = Off
Power Switch LED = Blinking Yellow
Instrument State = BACKGROUND SCAN
Status LED = Green
Power Switch LED = Green
Instrument State = Off
Status LED = Off
Power Switch LED = Off

2 Hardware Overview
Instrument Status Indicators in Data Acquisition
Agilent 6475 Triple Quad LC/MS System User Guide 19
Instrument Status Indicators in Data Acquisition
In MassHunter Data Acquisition, the Instrument Status window indicates the
state of the instrument.
⯀Gray - Not Connected: The instrument is configured with the system and
available to use, but the AIC/workstation is not currently running. The amount of
time for an instrument to reach the Idle state depends on each instrument.
⯀Yellow - Unknown: The device is in an unknown run state.
⯀Dark Yellow - Not Ready: The instrument is connected but is not ready to run
(due to not reaching the correct temperature or pressure required by the method,
for example).
⯀Green - Idle: The instrument is on and ready to process samples.
⯀Teal - Standby: The instrument is in a standby/sleep state.
⯀Purple - Pre-run/Injecting: The instrument is on and is preparing to start
acquisition.
⯀Blue - Running, Post Run: The instrument is currently collecting data.
⯀Orange - Tuning: The instrument is in the process of adjusting MS parameters.
⯀Light Orange - Not Ready: The device is not ready
⯀Red - Instrument Error: The instrument has an error and cannot process
samples.
Blank - Disconnected: The connection to the instrument has been closed.

2 Hardware Overview
Modes of Operation
Agilent 6475 Triple Quad LC/MS System User Guide 20
Modes of Operation
There are three standard modes of operation: ON, OFF, and Standby.
ON mode
ON is the fully operational status of the system. The instrument and the source
are on. When MassHunter Data Acquisition is opened, the instrument
automatically goes into ON mode.
OFF mode
When in the powered OFF state, the system is vented and the instrument is
turned off to allow for maintenance or to prepare for long periods of non-use.