Waters ACQUITY UPLC M-Class Parts list manual

ACQUITY UPLC M-Class
System Guide
715003588 / Revision A
Copyright © Waters Corporation 2014
All rights reserved

ii March 10, 2014, 715003588 Rev. A

March 10, 2014, 715003588 Rev. A iii
General Information
Copyright notice
© 2014 WATERS CORPORATION. PRINTED IN THE UNITED STATES OF
AMERICA AND IN IRELAND. ALL RIGHTS RESERVED. THIS
DOCUMENT OR PARTS THEREOF MAY NOT BE REPRODUCED IN ANY
FORM WITHOUT THE WRITTEN PERMISSION OF THE PUBLISHER.
The information in this document is subject to change without notice and
should not be construed as a commitment by Waters Corporation. Waters
Corporation assumes no responsibility for any errors that may appear in this
document. This document is believed to be complete and accurate at the time
of publication. In no event shall Waters Corporation be liable for incidental or
consequential damages in connection with, or arising from, its use. For the
most recent revision of this document, consult the Waters Web site
(waters.com).
Trademarks
ACQUITY, ACQUITY UPLC, Connections INSIGHT, MassLynx, UPLC,
“THE SCIENCE OF WHAT’S POSSIBLE.”, nanoACQUITY UPLC and Waters
are registered trademarks, and LAC/E and VanGuard are trademarks of
Waters Corporation.
PEEK is a trademark of Victrex Corporation.
Other registered trademarks or trademarks are the sole property of their
owners.
Customer comments
Waters’ Technical Communications organization invites you to report any
errors that you encounter in this document or to suggest ideas for otherwise
improving it. Help us better understand what you expect from our
documentation so that we can continuously improve its accuracy and
usability.
We seriously consider every customer comment we receive. You can reach us
at [email protected].

iv March 10, 2014, 715003588 Rev. A
Contacting Waters
Contact Waters®with enhancement requests or technical questions regarding
the use, transportation, removal, or disposal of any Waters product. You can
reach us via the Internet, telephone, or conventional mail.
Safety considerations
Some reagents and samples used with Waters instruments and devices can
pose chemical, biological, or radiological hazards (or any combination thereof).
You must know the potentially hazardous effects of all substances you work
with. Always follow Good Laboratory Practice, and consult your organization’s
standard operating procedures.
Considerations specific to the modules that comprise the
ACQUITY UPLC M-Class System
See also: For safety considerations regarding specific system modules,
consult the appropriate information on the user documentation CD.
Waters contact information:
Contacting medium Information
Internet The Waters Web site includes contact
information for Waters locations worldwide.
Visit www.waters.com.
Telephone and fax From the USA or Canada, phone
800 252-4752, or fax [phone].
For other locations worldwide, phone and fax
numbers appear in the Waters Web site.
Conventional mail Waters Corporation
34 Maple Street
Milford, MA 01757
USA

March 10, 2014, 715003588 Rev. A v
High voltage hazard
FCC radiation emissions notice
Changes or modifications not expressly approved by the party responsible for
compliance, could void the users authority to operate the equipment. This
device complies with Part 15 of the FCC Rules. Operation is subject to the
following two conditions: (1) this device may not cause harmful interference,
and (2) this device must accept any interference received, including
interference that may cause undesired operation.
Canada spectrum management emissions notice
This class A digital product apparatus complies with Canadian ICES-001.
Cet appareil numérique de la classe A est conforme à la norme NMB-001.
Electrical power safety notice
Do not position the instrument so that it is difficult to operate and disconnect.
Safety hazard symbol notice
Documentation needs to be consulted in all cases where the symbol is
used to find out the nature of the potential hazard and any actions which have
to be taken.
Equipment misuse notice
If the equipment is used in a manner not specified by the manufacturer, the
protection provided by the equipment may be impaired.
Safety advisories
Consult Appendix A for a comprehensive list of warning and caution
advisories.
Warning: To avoid electric shock, do not remove the system modules’
protective panels. The components they cover are not user-serviceable.

vi March 10, 2014, 715003588 Rev. A
Operating the ACQUITY UPLC M-Class system
When operating the ACQUITY UPLC®M-Class system, follow standard
quality-control (QC) procedures and the guidelines presented in this section.
Applicable symbols
Audience and purpose
This guide is intended for personnel who install, operate, and maintain
ACQUITY UPLC M-Class system modules. It gives an overview of the
system’s technology and operation.
Symbol Definition
Manufacturer
Authorized representative of the European
Community
Confirms that a manufactured product complies
with all applicable European Community
directives
Australia C-Tick EMC compliant
Confirms that a manufactured product complies
with all applicable United States and Canadian
safety requirements
Consult instructions for use
Electrical and electronic equipment with this
symbol may contain hazardous substances and
should not be disposed of as general waste.
For compliance with the Waste Electrical and
Electronic Equipment Directive (WEEE)
2012/19/EU, contact Waters Corporation for the
correct disposal and recycling instructions.

March 10, 2014, 715003588 Rev. A vii
Intended use of the ACQUITY UPLC M-Class system
Waters designed the ACQUITY UPLC M-Class system to perform
chromatographic separations. The system is for research use only and is not
intended for use in diagnostic applications.
Calibrating
To calibrate LC systems, follow acceptable calibration methods using at least
five standards to generate a standard curve. The concentration range for
standards must include the entire range of QC samples, typical specimens,
and atypical specimens.
When calibrating mass spectrometers, consult the calibration section of the
operator’s guide for the instrument you are calibrating. In cases where an
overview and maintenance guide, not operator’s guide, accompanies the
instrument, consult the instrument’s online Help system for calibration
instructions.
Quality control
Routinely run three QC samples that represent subnormal, normal, and
above-normal levels of a compound. If sample trays are the same or very
similar, vary the location of the QC samples in the trays. Ensure that QC
sample results fall within an acceptable range, and evaluate precision from
day to day and run to run. Data collected when QC samples are out of range
might not be valid. Do not report these data until you are certain that the
instrument performs satisfactorily.
ISM classification
ISM Classification: ISM Group 1 Class B
This classification has been assigned in accordance with IEC CISPR 11
Industrial Scientific and Medical (ISM) instruments requirements. Group 1
products apply to intentionally generated and/or used conductively coupled
radio-frequency energy that is necessary for the internal functioning of the
equipment. Class B products are suitable for use in both commercial and
residential locations and can be directly connected to a low voltage,
power-supply network.

viii March 10, 2014, 715003588 Rev. A
EC authorized representative
Waters Corporation
Stamford Avenue
Altrincham Road
Wilmslow
SK9 4AX UK
Telephone: [phone]
Fax: [phone]
Contact: Quality manager

March 10, 2014, 715003588 Rev. A ix
General Information .................................................................................... iii
Copyright notice .................................................................................................. iii
Trademarks ........................................................................................................... iii
Customer comments ............................................................................................ iii
Contacting Waters ............................................................................................... iv
Safety considerations .......................................................................................... iv
Considerations specific to the modules that comprise the ACQUITY UPLC
M-Class System ............................................................................................ iv
FCC radiation emissions notice .......................................................................... v
Canada spectrum management emissions notice .............................................. v
Electrical power safety notice ............................................................................. v
Safety hazard symbol notice................................................................................ v
Equipment misuse notice .................................................................................... v
Safety advisories.................................................................................................. v
Operating the ACQUITY UPLC M-Class system ........................................... vi
Applicable symbols ............................................................................................. vi
Audience and purpose......................................................................................... vi
Intended use of the ACQUITY UPLC M-Class system .................................. vii
Calibrating ........................................................................................................ vii
Quality control .................................................................................................. vii
ISM classification ................................................................................................ vii
ISM Classification: ISM Group 1 Class B ....................................................... vii
EC authorized representative ........................................................................ viii
1 ACQUITY UPLC M-Class system ......................................................... 15
Configurations of system modules ................................................................. 16
System components ........................................................................................... 18
Optimization ...................................................................................................... 18
Table of Contents

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Auxiliary solvent manager ................................................................................ 18
μBinary solvent manager .................................................................................. 19
μSample manager - fixed loop ........................................................................... 19
Sample organizer ............................................................................................... 19
Trap valve manager........................................................................................... 20
Detection ............................................................................................................ 20
Column technology ............................................................................................ 21
Software.............................................................................................................. 22
Options ............................................................................................................... 22
Additional information ..................................................................................... 23
2 Optimizing Performance ....................................................................... 25
General guidelines for a microscale system ................................................ 25
Required solvents............................................................................................... 25
Dispersion ............................................................................................................ 27
Carryover ............................................................................................................. 27
Contamination .................................................................................................... 28
Preventing leaks ................................................................................................ 29
Installing tubing and fittings............................................................................ 29
Sample preparation ........................................................................................... 30
3 Preparing the System ............................................................................ 31
Preparing the system ........................................................................................ 31
Powering-on the system hardware ................................................................... 31
Configure the system software.......................................................................... 32
Monitoring LEDs ............................................................................................... 32
Power LED ......................................................................................................... 32
Status LEDs....................................................................................................... 33
Starting the instrument console .................................................................... 35
Instrument control panels ............................................................................... 36
Solvent manager control panels........................................................................ 36
μSM-FL control panel........................................................................................ 38

March 10, 2014, 715003588 Rev. A xi
TVM control panel ............................................................................................. 40
4 Maintaining the system ......................................................................... 43
Contact Waters technical service ................................................................... 43
Maintenance procedure and frequency ....................................................... 44
Troubleshooting ................................................................................................. 49
General principles.............................................................................................. 50
Troubleshooting with Connections INSIGHT ............................................. 65
Configuring maintenance warnings .............................................................. 66
Spare parts .......................................................................................................... 66
A Safety Advisories ................................................................................... 67
Warning symbols ................................................................................................ 67
Task-specific hazard warnings.......................................................................... 67
Specific warnings ............................................................................................... 69
Caution advisory ................................................................................................ 70
Warnings that apply to all Waters instruments and devices ................... 71
Warnings that address the replacing of fuses ............................................. 76
Electrical and handling symbols .................................................................... 78
Electrical symbols .............................................................................................. 78
Handling symbols .............................................................................................. 79

xii March 10, 2014, 715003588 Rev. A
B Specifications .......................................................................................... 81
Features and performance specifications ................................................... 81
Instrument control ............................................................................................ 86
Environmental specifications ......................................................................... 87
Power requirements .......................................................................................... 87
Physical specifications ..................................................................................... 87
C External Connections ............................................................................ 89
System waste routing ........................................................................................ 89
External wiring connections ........................................................................... 91
Ethernet connections ......................................................................................... 91
Signal connections ............................................................................................. 92
Connecting signal cables ................................................................................... 92
Connecting to the electricity source ............................................................. 94
D Solvent Considerations ......................................................................... 97
Solvent guidelines .............................................................................................. 97
Clean solvents .................................................................................................... 97
Solvent quality ................................................................................................... 98
Solvent preparation ........................................................................................... 98
Water .................................................................................................................. 98
Solvent recommendations ............................................................................... 99
Recommended solvents...................................................................................... 99
Solvents to avoid ................................................................................................ 99
Recommended cleaning agents ....................................................................... 100
System recommendations .............................................................................. 100
Solvent manager recommendations................................................................ 101
μSM-FL recommendations .............................................................................. 101

March 10, 2014, 715003588 Rev. A xiii
Properties of common solvents .................................................................... 101
Solvent miscibility ........................................................................................... 103
Using miscibility numbers (M-numbers)........................................................ 104
Solvent viscosity ............................................................................................... 105

xiv March 10, 2014, 715003588 Rev. A

March 10, 2014, 715003588 Rev. A 15
1ACQUITY UPLC M-Class system
Waters®designed the ACQUITY UPLC M-Class system to perform a range of
chromatographic separations from nano-scale to micro-scale. With a
maximum operating pressure of 103,421 kPa (1034 bar, 15,000 psi), an
analytical flow rate to 100 μL/min, and a trapping flow rate to 1 mL/min, the
system produces optimal linear velocity for columns that range in internal
diameter from 75 μm to 1.0 mm.
The system is compatible with Waters mass spectrometers and optical
detectors, supporting a range of column diameters. Options include:
• NanoFlow™ ESI and NanoLockSpray™ sources for Waters
time-of-flight and tandem MS, respectively, for flow rate ranges from
200 nL/min to 2,000 nL/min.
• micro-scale ESI probe for use in the ZSpray™ API and LockSpray dual
electrospray ion sources for flow rates ranges from 5 μL/min and
100 μL/min.
• A 100-nL, light-guided, flow cell for columns ranging from 300 μm to
1.0 mm I.D with the ACQUITY UPLC PDA and TUV detectors. A 10-nL,
transverse-illuminated, flow cell for nano-scale separations with the
ACQUITY UPLC TUV detector.
ACQUITY UPLC M-Class systems that include mass spectrometry, optical
detection, or both can analyze compounds found in low-concentrations amid
complex matrices, quantifying peptides or metabolites (when used with a
tandem mass spectrometer) or performing other, targeted experiments.
Contents:
Topic Page
Configurations of system modules .................................................. 16
System components.......................................................................... 18
Additional information .................................................................... 23

1 ACQUITY UPLC M-Class system
16 March 10, 2014, 715003588 Rev. A
Configurations of system modules
Shown here are examples of the ACQUITY UPLC M-Class system stack
consisting of the core modules. Your system configuration may differ
according to the number and types of modules it contains. For example, if your
system includes a mass spectrometer, the system modules may be arranged in
two separate stacks.
See also: For information on the ACQUITY UPLC M-Class systems with
HDX technology and the ACQUITY UPLC M-Class systems with HDX
Automation refer to the ACQUITY UPLC M-Class with HDX Technology
System Guide on the documentation CD.

Configurations of system modules
March 10, 2014, 715003588 Rev. A 17
Examples of typical system configurations for the ACQUITY UPLC M-Class
system:
Solvent tray
Trap valve manager
µSample manager
-fixed loop
µBinary solvent
manager
Solvent tray
Trap valve manager
µSample manager
-fixed loop
µBinary solvent
manager
Solvent tray
Trap valve manager
µSample manager
-fixed loop
µBinary solvent
manager
Solvent tray
Trap valve manager
µSample manager
-fixed loop
µBinary solvent
manager
Auxiliary solvent
manager
µBinary solvent
manager
µBinary solvent
manager
Auxiliary solvent
manager
Micro cart

1 ACQUITY UPLC M-Class system
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System components
The capabilities of the ACQUITY UPLC M-Class system depend on the
components configured for operation. The following sections briefly describe
the system components and their functions.
Optimization
• The system components are optimized for use with sub-2-μm, particle
liquid chromatography and reduced fluid volumes.
• 100-nL, 10-mm path-length, light-guided TUV and PDA detector flow
cells deliver sensitivity and resolution to ACQUITY UPLC M-Class
applications on columns ranging from 300-μm to 1.0-mm I.D.
• The columns, tubings and fittings support flow rates for a gradient
elution from 200 nL/min to 100 μL/min and at 103,421 kPa (1034 bar,
15,000 psi).
• With mass spectrometry, NanoLockSpray achieves exact mass
measurement with columns ranging from 75-μm to 1.0-mm I.D.
• Solvent managers with flow control modules provide accurate NanoFlow
rates; an optional auxiliary solvent manager is two isocratic pumps. The
A-side provides an additional eluent with a flow rate range from 0.0 to
1.000 mL/min; the B-Side, provides NanoLockSpray addition under flow
control with a flow rate range from 0.0 to 100.0 μL/min.
• A micro-scale ESI probe in the ZSpray API interface delivers superior
sensitivity. As column I.D. is decreased this micro-probe reduces
band-broadening to maintain chromatographic integrity.
Auxiliary solvent manager
The auxiliary solvent manager (ΑSM) is a high-pressure pump that provides
pulse-free flow rates at operating pressures as high as 103,421 kPa (1034 bar,
15,000 psi). The ASM consists of two isocratic pumps, pump A and pump B.
Each pump is fitted with two linear-drive actuators, which together serve as a
single reciprocating “serial” pump that delivers precise flow of a single
solvent. The solvent flows to the μSM-FL or column at an overall flow rate of
0.0 to 1000.0 μL/min from pump A and 0.0 to 100.0 μL/min from pump B.
See also: The Auxiliary Solvent Manager Overview and Maintenance Guide,
on the documentation CD, for more information about this module.

System components
March 10, 2014, 715003588 Rev. A 19
µBinary solvent manager
The μbinary solvent manager (μBSM) is a high-pressure pump that provides
steady (pulse-free) solvent flow at flow rates ranging from 0.0 to 6.0 μL/min
(under closed-loop control) or to 100.0 μL/min (under open-loop control) at
103,421 kPa (1034 bar, 15,000 psi).
See also: The
μ Binary Solvent Manager Overview and Maintenance Guide, on
the documentation CD, for more information about this module.
µSample manager - fixed loop
The μsample manager-fixed loop (μSM-FL) manages sample injection. It uses
a fixed loop-based mechanism to inject samples. After a puncture needle
pierces the covering of a well or vial, a sample needle extends through the
puncture needle and aspirates the sample. The aspirated sample is then
drawn toward the sample loop while weak-wash solvent is simultaneously
dispensed through the needle, behind the sample. The wash syringe then
pressurizes the needle from the tip, compressing the air gaps around the
sample and positioning the sample completely within the loop. When the
sample is in position, the injection valve is actuated to the inject position, and
high-pressure flow from the pump impels the sample onto the
chromatographic column.
The μSM-FL employs a thermal system that maintains a set temperature in
the sample compartment. When used in conjunction with the optional sample
organizer they create a combined, thermally controlled compartment.
See also: The µSample Manager - Fixed Loop Overview and Maintenance
Guide on the documentation CD, for more information about this module.
Sample organizer
The optional sample organizer enables automatic processing and increased
throughput by storing multiple microtiter or vial plates and transferring them
to and from the μSM-FL.
The sample organizer’s storage-shelf compartment can hold a selection of
ANSI plates. A heater/cooler thermally conditions the shelf compartment and
maintains the temperature at a specified set point.
See also: The Sample Organizer Overview and Maintenance Guide, on the
documentation CD, for more information about this module.

1 ACQUITY UPLC M-Class system
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Trap valve manager
The trap valve manager (TVM) comprises two trapping valves and a
column-heater compartment. The compartment, to the right-hand side of the
chassis, extends outward in any position between 90° and 180°, plumbs into
an optional optical detector or is plumbed into a mass spectrometer.
The TVM accommodates several columns ranging from 75-μm I.D. to 2.1-mm
I.D., in lengths up to 25-cm.
See also: The Trap Valve Manager Overview and Maintenance Guide, on the
documentation CD, for more information about this module.
Detection
Optical detection
The ACQUITY UPLC PDA and TUV are optical detectors that detect and
quantify concentrations of sample analyte. New flow cells, developed with
non-reactive wetted surfaces, are compatible with the operation of 300 μm to
1.0 mm I.D. columns.
See also: The ACQUITY UPLC M-Class System documentation CD for the
following documents:
•ACQUITY UPLC TUV Detector Operator’s Overview and Maintenance
Guide
•ACQUITY UPLC Photodiode Array and e
λ Photodiode Array Detector
Operator’s Overview and Maintenance Guide.
Mass detection
The ACQUITY UPLC M-Class system maximizes peak capacity, extending
the dynamic range of sample analysis. The ACQUITY UPLC M-Class system
can be combined with all types of mass spectrometers, whether analyzing
complex samples in wide-ranging matrices with a high resolution MS, or
quantifying peptides, metabolites, or other targeted experiments with tandem
MS. Engineered for the lowest dispersion, including an improved ESI
micro-probe design, and with an extended pressure envelope, complex
separations can be accelerated without compromising the chromatography.
When multiple microscale and UPLC systems connect to a single mass
spectrometer, you can switch between those systems using a software utility.