Thermo Scientific Dionex UltiMate 3000 Series User manual

Thermo Scientific Dionex
UltiMate 3000 Series
SR-3000 Solvent Rack
Operating Instructions
(Original Operating Instructions)
Revision: 1.7
Date: September, 2013
© 2013 Thermo Fisher Scientific Inc.
Doc. No. 4820.3555
*4820.3555*

UltiMate 3000 Series:
SR-3000 Solvent Rack
Operating Instructions

UltiMate 3000 Series:
SR-3000 Solvent Rack
Operating Instructions Page I
Declaration of Conformity
(Original Declaration of Conformity)
Product: Thermo Scientific Dionex UltiMate 3000 Solvent Rack
Types: SR-3000, SRD-3200, SRD-3400, SRD-3600
Dionex Softron GmbH herewith declares conformity of the above products with the
respective requirements of the following regulations:
•Low-Voltage Directive 2006/95/EC
•EMC Directive 2004/108/EC
The electrical safety of the products was evaluated based on the following standard:
•DIN EN 61010-1:2010
Safety requirements for electrical equipment for measurement, control and
laboratory use, Part 1: General Requirements
The Electromagnetic Compatibility (EMC) of the products was evaluated based on the
following standard:
•DIN EN 61326:2006
Electrical equipment for measurement, control and laboratory use
EMC Requirements
This declaration is issued for the manufacturer
Dionex Softron GmbH
Part of Thermo Fisher Scientific Inc.
Dornierstraße 4
D-82110 Germering
by the Managing Director, Rüdiger Obst and
the Vice President HPLC, Fraser McLeod.
September 2, 2013

UltiMate 3000 Series:
SR-3000 Solvent Rack
Page II Operating Instructions

UltiMate 3000 Series:
SR-3000 Solvent Rack
Operating Instructions Page i
Table of Contents
1Introduction................................................................................................................... 1
1.1 How to Use This Manual ........................................................................................... 1
1.2 Safety Information ..................................................................................................... 2
1.2.1 Symbols on the Instrument and in the Manual ..................................................2
1.2.2 Safety Precautions.............................................................................................. 3
1.2.3 Consignes de Sécurité........................................................................................ 6
1.3 Intended Use .............................................................................................................. 9
1.4 Federal Communications Commission (FCC) Note.................................................. 9
2Installation and Maintenance .................................................................................... 11
2.1 General Information................................................................................................. 11
2.2 Unpacking................................................................................................................ 11
2.3 Positioning the Solvent Rack in the UltiMate 3000 System.................................... 12
2.4 Inside View .............................................................................................................. 13
2.5 Solvent Reservoirs ................................................................................................... 14
2.5.1 General Precautions ......................................................................................... 14
2.5.2 Connecting the Solvent Reservoirs.................................................................. 15
2.6 Routine and Preventive Maintenance ...................................................................... 16
3Technical Information................................................................................................ 17
4Accessories, Consumables, and Spare Parts ............................................................ 19
4.1 Standard Accessories ............................................................................................... 19
4.2 Consumables and Spare Parts .................................................................................. 19

UltiMate 3000 Series:
SR-3000 Solvent Rack
Page ii Operating Instructions

UltiMate 3000 Series:
SR-3000 Solvent Rack
Operating Instructions Page 1
1 Introduction
1.1 How to Use This Manual
The layout of this manual is designed to provide quick reference to the sections of interest
to the reader. However, in order to obtain a full understanding of the Thermo Scientific
Dionex™ UltiMate™ 3000 Solvent Rack, Thermo Fisher Scientific recommends that you
review the manual thoroughly before beginning operation.
This manual is provided "as is." Every effort has been made to supply complete and
accurate information and all technical specifications have been developed with the utmost
care. The information contained in this manual should not be construed as a commitment
by Thermo Fisher Scientific. Thermo Fisher Scientific 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 Thermo Fisher Scientific be liable for
incidental or consequential damages in connection with or arising from the use of this
document. The information contained in this document is subject to change without notice.
All rights reserved, including those for photomechanical reproduction and storage on
electronic media. No part of this publication may be copied or distributed, transmitted,
transcribed, stored in a retrieval system, or transmitted into any human or computer language,
in any form or by any means, electronic, mechanical, magnetic, manual, or otherwise, or
disclosed to third parties without the express written permission of Thermo Fisher Scientific
Inc.
Trademarks
PEEK is a trademark of Victrex PLC.
All other trademarks are property of Thermo Fisher Scientific Inc. and its subsidiaries.

UltiMate 3000 Series:
SR-3000 Solvent Rack
Page 2 Operating Instructions
1.2 Safety Information
The CE Mark label on the instrument indicates that the instrument is compliant with the
related standards.
1.2.1 Symbols on the Instrument and in the Manual
The table shows the symbols used on the instrument:
Symbol Description
WEEE (Waste Electrical and Electronic Equipment) label—For more
information, see the WEEE Information section in the "Installation and
Qualification Documents for Dionex Thermo Scientific Instruments" binder.
Étiquette DEEE (Déchets d'Equipements Electriques et Electroniques) — Pour
plus d'informations, référez-vous au chapitre WEEE Information dans le classeur
"Installation and Qualification Documents for Chromatography Instruments".
Refer to the operating instructions to prevent risk of harm to the operator and to
protect the instrument against damage.
Référez-vous à ce manuel pour éviter tout risque de blessure à l'opérateur et/ou
protéger l'instrument contre tout dommage.
Label according to the "Measures for Administration of the Pollution Control of
Electronic Information Products" (China RoHS) guideline if necessary
Étiquette China RoHs si nécessaire
At various points throughout the manual, the following symbols indicate messages of
particular importance:
Tip: Indicates general information, as well as information intended to
optimize the performance of the instrument.
Important: Indicates that failure to take note of the accompanying information
could cause wrong results or may result in damage to the instrument.
Important: Indique que ne pas tenir compte de l'information jointe peut conduire
à de faux résultat ou endommager l'instrument.
Warning: Indicates that failure to take note of the accompanying information
may result in personal injury.
Avertissement: Indique que ne pas tenir compte de l'information jointe peut entraîner
des blessures corporelles.

UltiMate 3000 Series:
SR-3000 Solvent Rack
Operating Instructions Page 3
1.2.2 Safety Precautions
When working with analytical instrumentation, you must know the potential hazards of
using chemical solvents.
Tip: Before initial operation, make sure that you are familiar with the
contents of this manual.
For the safety precautions in French, see section 1.2.3 (→page 6).
Warning: All users of the device must observe the following safety precautions
and all additional safety precautions in this manual to avoid the
possibility of personal injury or damage to the device when operating
the device or carrying out any maintenance or service procedures.
Observe any warning labels on the device and see the related sections in
these Operating Instructions.
•Protective equipment
When performing any work on or near the HPLC system, wear personal protective
equipment (protective clothing, safety gloves, safety glasses) as required by the hazard of
the mobile phase and sample. For information about the proper handling of particular
substance and for advice on specific hazards, refer to the material safety data sheet for the
substance you are using. Observe the guidelines of Good Laboratory Practice (GLP).
An eyewash facility and a sink should be close to the device. If any substance splashes on
the eyes or skin, wash the affected area and seek medical attention.
•Hazardous substances
Many organic solvents, mobile phases, and samples are harmful to health. Be sure that
you know the toxic and infectious properties of all substances that you are using. You
may not know the toxic or infectious properties of many substances that you are using. If
you have any doubt about a substance, treat it as if it contains a potentially harmful
substance. For advice on the proper handling of a particular substance, refer to the Safety
Data Sheet (SDS) of the manufacturer. Observe the guidelines of Good Laboratory
Practice (GLP).
Dispose of waste substance in an environmentally safe manner that is consistent with all
local regulations. Do not allow flammable, toxic, and/or infectious substances to
accumulate. Follow a regulated, approved waste disposal program. Never dispose of
flammable, toxic, and/or infectious substances through the municipal sewage system.
•Hazardous gases
Install the HPLC system in a well-ventilated laboratory. If the mobile phase or sample
includes volatile or flammable solvents, do not allow them to enter the workspace. If the
mobile phase or sample includes volatile or flammable solvents, avoid open flames and
sparks.

UltiMate 3000 Series:
SR-3000 Solvent Rack
Page 4 Operating Instructions
•Electrostatic discharge
Discharge of electrostatic energy may lead to sparking and can constitute a fire hazard.
Keep in mind that liquid flowing through capillaries can generate static electricity. This
effect is particularly pronounced in insulating capillaries and with non-conductive
solvents (for example, pure acetonitrile).
Take appropriate measures to prevent the generation of static electricity near the HPLC
system. For example, make sure that the air humidity level in the laboratory is
sufficiently high and provide proper ventilation, wear anti-static clothing or shoes,
prevent accumulation of air bubbles in waste lines, and use grounded waste containers.
Use only non-conductive capillaries to direct solvents into the waste container. With
electrically conductive capillaries, make sure that they are properly grounded.
•Self-ignition of solvents
Do not use solvents for which the self-ignition temperature is below 150 °C. In case of
leakage, these solvents may self-ignite on a hot surface.
•Capillaries, capillary connections, open connections
♦Capillaries, especially non-metallic capillaries may burst, slip out of their fittings or
may not be screwed in. This may result in substances spraying out of the open
connections.
♦In an UltiMate 3000 system, some components are made of PEEK™. This polymer
has superb chemical resistance to most organic solvents. However, it tends to swell
when in contact with trichlormethane (CHCl3), dimethyl sulfoxide (DMSO), or
tetrahydrofuran (THF). In addition, it is attacked by concentrated acids, such as,
sulfuric acid and nitric acid or a mixture of hexane, ethyl acetate, and methanol. In
both cases, capillaries may start leaking or they can burst. Swelling or attack by
concentrated acids is not a problem with brief flushing procedures.
♦Do not use tubing that is stressed, bent, kinked, or damaged.
♦Capillary connections can be contaminated by harmful substances or harmful
substances can escape from open connections.
♦Some capillaries of the RS pumps and some Viper system capillaries are made of
MP35N®, a nickel-cobalt based alloy. Individuals with sensitivity to nickel/cobalt may
show an allergic reaction from skin contact.
♦Always wear safety glasses when handling fused silica tubing, for example, during
installation or when cutting capillaries to the length.
•For safety reasons, you shall not lift the SRD with one or more solvent reservoirs being in
the tray.
•Use only the original spare parts and accessories authorized for the device by Thermo
Fisher Scientific.

UltiMate 3000 Series:
SR-3000 Solvent Rack
Operating Instructions Page 5
•When operating the HPLC system, always set a lower pressure limit for the pump. This
prevents damage resulting from leakage or from running the pump dry over a longer
period. Activate solvent reservoir level monitoring (→Pump manual).
•The front panel tilts upward. When lifting or moving the SRD, always lift by the bottom
or sides of the instrument. This is to avoid damage to the instrument.
•The open front panel door is not designed to carry weight. Therefore, you shall not place
any objects on the open front panel door.
•Do not use the solvent rack in ways other than those described in this manual.
•Keep the operating instructions near the device to be available for quick reference.

UltiMate 3000 Series:
SR-3000 Solvent Rack
Page 6 Operating Instructions
1.2.3 Consignes de Sécurité
Si vous utilisez d'instrumentation analytique, vous devez connaître les risques d'utilisation
de produit chimiques.
Veuillez noter: Avant de commencer à utiliser l'instrument, assurez-vous que vous
vous êtes familiarisés avec le contenu de ce manuel.
Avertissement: Toutes les personnes utilisant l’instrument doivent observer les
consignes de sécurité suivantes et dans les autres chapitres de ce
manuel pour éviter une mise en danger de sa personne ou de
dommage à l’instrument pendant l’utilisation et des opérations de
maintenance ou service de l’instrument.
Observez les étiquettes d'avertissement sur l'instrument et référez-
vous aux sections correspondantes dans ce mode d'emploi.
•Equipment de protection
Pour tous les travaux sur le système HPLC ou à proximité, portez l'équipment de
protection personnel (vêtements de protection, gant de sécurité, lunettes de protection)
qui correspond aux risque découlant de la phase mobile et/ou de l'échantillon. Pour les
informations sur la manipulation correcte des composés et des recommandations pour les
situations de risque spécifiques, veuillez consulter la fiche de données de sécurité des
substances que vous utilisez. Veuillez respecter des directives des Bonnes Pratiques de
Laboratoire (BPL).
Une installation permettant de se laver les yeux ainsi qu'un lavabo doivent se trouver à
proximité du système. Si une substance, quelle qu'elle soit, entre en contact avec vos
yeux ou votre peau, rincez abondamment la zone affectée à l’eau, puis.
•Substances dangereuses
De nombreux solvants organiques, phases mobiles et échantillons sont nuisibles à la
santé. Informez-vous de propriétés toxicologiques et infectieuses de toutes les substances
que vous utilisez. Les propriétés toxicologiques et infectieuses de nombreuses substances
peuvent être mal connues. Au moindre doute concernant une substance, traitez-la comme
s'il contenait une substance potentiellement dangereuse. Pour des instructions comment
utiliser correctement des composés particuliers, veuillez consulter à la fiche de données
des sécurités du fabricant respectif. Veuillez respecter des directives des Bonnes
Pratiques de Laboratoire (BPL).
Débarrassez-vous de tous les déchets de substances de manière écologique,
conformément à la règlementation en vigueur au niveau local. Empêchez impérativement
l'accumulation de solvants inflammables, toxiques et/ou infectieux. Suivez un
programme d'élimination des déchets règlementé et approuvé. Ne jetez jamais de
solvants inflammables, toxiques et/ou infectieux dans le système municipal d'évacuation
des eaux usées.

UltiMate 3000 Series:
SR-3000 Solvent Rack
Operating Instructions Page 7
•Gaz dangereux
Installez le système HPLC dans un laboratoire bien ventilé. Si la phase mobile ou
l’échantillon contient des solvants volatils ou inflammables, vous devez assurer qu'ils ne
pénètrent dans l'espace de travail. Si la phase mobile ou l’échantillon contient des
solvants volatils ou inflammables, évitez les flammes nues et les sources d’étincelles à
proximité.
•Décharge électrostatique
Décharge électrostatique peut provoquer la formation d'étincelles et peut présenter un
risque d’incendie. Veuillez noter que des solvants fluides dans les capillaires peuvent se
charger automatiquement. Cet effet se peut produire particulièrement forte dans les
capillaires isolants et avec des solvants non-conducteurs (par exemple, l'acetonitrile pur).
Prenez des mesures appropriées pour éviter les charges électrostatiques à proximité du
système HPLC. Par exemple, s'assurez qu'il y a une humidité de l'air suffisante et une
ventilation adéquate dans la laboratoire, portez des vêtements ou équipement de
protection antistatique, évitez l'accumulation de bulles d'air dans les lignes de déchets et
utilisez des réservoirs à déchets mis à la terre.
Utilisez uniquement des capillaires non-conducteurs pour diriger solvants au réservoir de
déchets. Capillaires électriquement conducteur devrait être mis à la terre.
•Inflammation spontanée des solvants
N’utilisez aucun solvants avec une température d‘auto-inflammabilité inférieure à
150° C. Si une fuite se produit, ces solvants peuvent s’auto-enflammer au contact d’une
surface chaude.
•Capillaires, connecteur capillaires, connexions ouvertes
♦Des capillaires, en particulier les capillaires non-métalliques, pourraient fendre ou
glisser des connecteurs ou ne peuvent pas être vissés. Ceci peut en résulter aussi que
des substances pourraient jaillir des connexions ouvertes.
♦Dans un système UltiMate 3000, certaines composantes sont en PEEK. Bien que ce
polymère présente une excellente résistance chimique à la plupart des solvants
organiques, il a tendance à gonfler lorsqu'il est en contact prolongé avec du
chloroforme (CHCl3), du diméthyle sulfoxyde (DMSO) ou du tétrahydrofurane
(THF). De plus, il est attaqué par des acides concentrés tels que l'acide sulfurique et
l'acide nitrique ou d'un composé du hexane, éthyle acétate et méthanol. Ceci peut
causer des capillaires de fuite ou risquer des capillaires d’éclater. Ces acides peuvent
cependant être utilisés dans le cadre de procédures de nettoyage, à condition que
l’exposition soit brève.
♦N'utilisez pas de capillaires écrasés, pliés, abimés ou endommagés.
♦Les connecteurs capillaires pour pourrait être contaminé par des substances
dangereuses ou des substances dangereuses pourrait sortir des connexions ouvertes.

UltiMate 3000 Series:
SR-3000 Solvent Rack
Page 8 Operating Instructions
♦Certains capillaires des pompes RS, ainsi que des capillaires du système Viper, sont
faits d'alliage de nickel-cobalt MP35N. Contact avec la peau peut provoquer une
réaction chez les personnes qui sont sensibles au nickel/cobalt.
♦Portez des lunettes de protection lorsque vous manipulez des capillaires en silice
fondue (pendant l'installation, découpe, etc.).
•Pour raison de sécurité, ne soulevez pas l'instrument avec des réservoirs.
•Utilisez seulement des pièces de rechange originales et des accessoires autorisés par
Thermo Fisher Scientific.
•Réglez toujours une limite de pression minimum pour le système HPLC. Ceci prévient
les dommages résultant de fuites ou de long-terme fonctionnement à sec de la pompe.
Activez la surveillance de niveau liquide pour des réservoirs (→manuel de pompe).
•Lorsque vous soulevez ou l’instrument, tenez-le toujours par le dessous ou par les côtés
de l'unité. Soulever l’instrument par la partie avant inférieure ou par le panneau avant
peut endommager la porte.
•Ne placez aucun objet lourd sur la porte ouverte du panneau avant. Ceci pourrait
endommager la porte.
•N'utilisez pas l'instrument de manière autre que celles décrites dans ce manuel.
•Conservez ce manuel á proximité de l’instrument pour pouvoir le consulter facilement.

UltiMate 3000 Series:
SR-3000 Solvent Rack
Operating Instructions Page 9
1.3 Intended Use
For Research Use Only. Not for use in diagnostic procedures.
The device is designed to be operated only be qualified and authorized personnel. All users
must know the hazards presented by the device and the used substances.
1.4 Federal Communications Commission (FCC) Note
This equipment has been tested and found to comply with the limits for a Class A digital
device, pursuant to part 15 of the U.S. FCC Rules. These limits are designed to provide
reasonable protection against harmful interference when the equipment is operated in a
commercial environment. This equipment generates, uses, and can radiate radio frequency
energy and, if not installed and used in accordance with the instruction manual, may cause
harmful interference to radio communications. Operation of this equipment in a residential
area is likely to cause harmful interference, in which case the user will be required to
correct the interference at his expense.

UltiMate 3000 Series:
SR-3000 Solvent Rack
Page 10 Operating Instructions

UltiMate 3000 Series:
SR-3000 Solvent Rack
Operating Instructions Page 11
2 Installation and Maintenance
2.1 General Information
The solvent rack is a high-quality instrument designed for HPLC analysis as part of an
UltiMate 3000 system. The rack is intended for use as a solvent organizer, for example,
together with a LPG-3400 pump, providing a secure location for installation of the solvent
reservoirs and, when mounted on top of the UltiMate 3000 system, saves valuable bench
space.
All parts in the flow path are made of PEEK, FEP, stainless steel, or Titanium (biocompatible
system only) to provide optimum resistance to the most commonly used HPLC solvents and
buffer solutions.
2.2 Unpacking
All mechanical components of the solvent rack are carefully tested before the instrument is
shipped from the factory. After unpacking, inspect the rack for any signs of mechanical
damage that may have occurred during transit.
Tips: Immediately report any shipping damage to both, the incoming carrier and
Thermo Fisher Scientific. Shipping insurance will compensate for the damage
only if reported immediately.
Keep the original shipping container and the packing material. They will
provide excellent protection for the solvent rack in case of future transit.
Shipping the rack in any other packaging automatically voids the product
warranty. For more information, see the warranty statement in the terms of
sale.
1. Place the shipping container on the floor. Remove the accessories kit and solvent
bottles.
2. Grasp the solvent rack by the sides. Slowly and carefully, pull the rack out of the
shipping container and place it on a stable surface.
Important: To prevent the rack from falling, always lift the unit by the sides.
Do not lift the unit by the packaging material.
Important: Afin d'empêcher l'instrument de tomber, saisissez-la par les côtés.
Ne soulevez l'instrument à l’aide du matériau d'emballage.
3. Remove the foam spacers, and then remove the polythene packaging.

UltiMate 3000 Series:
SR-3000 Solvent Rack
Page 12 Operating Instructions
2.3 Positioning the Solvent Rack in the UltiMate 3000 System
If the solvent rack is part of an UltiMate 3000 system, for example, for analytical HPLC
applications, you should stack the individual modules, for example, as shown in Fig. 1.
However, the arrangement of the system modules depends on the application.
Fig. 1: Module arrangement for an UltiMate 3000 system (example)
If the solvent rack is part of an UltiMate 3000 RSLCnano or Proteomics MDLC system,
the related system manual provides information about how to arrange the system modules
and set up the systems for these applications.
Detector
Autosampler
Column Compartment
Pump
Solvent Rack

UltiMate 3000 Series:
SR-3000 Solvent Rack
Operating Instructions Page 13
2.4 Inside View
The front panel door tilts upward to provide access to the tubing guides in the solvent rack.
The open door locks in its topmost position.
Fig. 2: SR-3000 with open front panel
Warning: For safety reasons, you shall not lift the solvent rack when one or
more solvent reservoirs are in the tray.
Avertissement: Pour raison de sécurité, ne soulevez pas l'instrument avec des
réservoirs.
Important: When lifting or moving the solvent rack, always lift by the bottom or
sides of the unit. Lifting the solvent rack by the front panel may
damage the front panel door.
The open front panel door is not designed to carry weight. Therefore,
you should not place any objects on the open door.
Important: Lorsque vous soulevez ou l’instrument, tenez-le toujours par le
dessous ou par les côtés de l'unité. Soulever l’instrument par la partie
avant inférieure ou par le panneau avant peut endommager la porte.
Ne placez aucun objet sur la porte ouverte du panneau avant. Ceci
peut endommager la porte.
Tubing guides for the solvent lines

UltiMate 3000 Series:
SR-3000 Solvent Rack
Page 14 Operating Instructions
2.5 Solvent Reservoirs
The solvent rack is shipped with solvent reservoirs and appropriate tubing, including filter
holders and filter frits.
2.5.1 General Precautions
When connecting the solvent reservoirs, observe the following general precautions:
•Rinse the eluent reservoirs thoroughly before using them for the first time. Use high-
purity solvent for rising.
•Always install filter frits on the solvent lines. This prevents contaminants from reaching
the HPLC system.
•Regularly check the filter frits for permeability. Replace the filter frits at regular intervals.
This is especially important when using aqueous solvents. Aqueous solvents may
contaminate the filters with algae and other microorganisms that deposit on the filter frits.
Therefore, also replace the solvents at regular intervals. Rinse the reservoirs thoroughly
before refilling them. Replace the filter frits as necessary.
•As standard, the filter frits shipped with the solvent rack are stainless steel frits.
If the UltiMate 3000 system includes a biocompatible pump, NCS-3500RS, or
NCP-3200RS, replace the stainless frits with the frits from the accessories kit of the
module. To do so, unscrew the top part of the filter holder from its bottom part and
replace the filter frit. When placing the new filter frit into the bottom part, make sure that
the frit is in a level position (avoid tilting the frit).
If the UltiMate 3000 system includes a semipreparative pump, use the filter holder and
filter frit from the accessories kit of the pump.
•Locate the solvent reservoirs as close as possible to the pump. To avoid formation of gas
bubbles in the reservoirs, make sure that the reservoirs are on the same level or higher as
the pump. Therefore, stack the rack onto the pump as shown in Fig. 1 (→page 12). The
tubing connecting the pump to the degasser should be as short as possible to avoid
reformation of gas bubbles in the solvent.
•When replacing solvents, make sure that the solvents are miscible. Mix immiscible
solvents with an intermediate solvent (for example, isopropanol) to replace them step-by-
step.