Centre of Molecular Structure

Technologies for structural and biophysical analysis of biological molecules

Operational status

All instruments are opetational.

Access to CMS is in standard regime, users are expected to wear facemasks. We ask for following hygine rules as COVID-19 prevention.

Please, plan your experimants after agreement with the staff well in advance.

CMS at Twitter

Open day in Centre of Molecular Structure

On 31st March 2022, all current or potential users are welcome to visit CMS for the open day. More details and detailed programme is available here.

MOSBRI - A New European Research Infrastructure for Molecular Biophysics

The European Union’s Horizon 2020 INFRAIA programme has awarded a 5 M€  infrastructure grant to MOSBRI (Molecular-Scale Biophysics Research Infrastructure www.mosbri.eu), a consortium of 13 academic centres of excellence and 2 industrial partners from 11 different European countries, coordinated by Institut Pasteur (Paris, France). One of the partners is the Institute of Biotechnology of the Czech Academy of Sciences from BIOCEV.

The MOSBRI project will enable to create a research infrastructure combining the distinct instrumentation and expertise of the individual partner laboratories, thus allowing to tackle an unusually wide variety of life science research questions. It will also disseminate its knowhow through an ambitious programme of training workshops and meetings, particularly suited to early career researchers and others new to the field.

 MOSBRI will commence operations on the 1st of July of 2021.

Application form

Aplications through the standard form is now available also for the CF Protein Production at CIISB page.

New equipment

Crystallization hotel Fromulatrix RI182

Automatic crystallization screening is now available also in lower temperatures, thanks to installation the new crystallization hotel RI182. The hotel is ready to recieve users experiments. More information here.

New mass spectrometer

CF Mass Spectrometrz wasa strenghten bz addition of timsTOF Pro instrument.

General purpose pipetting robot OT-2

The instrumental portfolio in CMS was recently extended by genreal purpose pipetting robot OT-2 from Opentrons. The open platform enables wide range of applications. In CMS, the robot will help with setting up experiments mostly for CF Biophysical Methods and CF Crystallization of Proteins and Nucleic Acids.

From users

The Boura lab (IOCB Prague) collected data for their study on the SARS-CoV-2 methyltransferase complex at the Diffraction facility of CMS. Their results published in Nat Commun 11, 3717 (2020). https://doi.org/10.1038/s41467-020-17495-9, show high conservation of active site of this complex between SARS-CoV-2 and SARS-CoV viruses.

The Centre of Molecular Structure (CMS) provides state-of-the-art equipment, expertise and services for characterization of biological molecules and for structural analysis. CMS provides services in an Open Access regime, to internal IBT users and also to any academics or industrial customers. The facilities are operated under the Czech Infrastructure for Integrative Structural Biology and belong to the Czech center of the European structural biology infrastructure Instruct-ERIC. The facility educates Czech and foreign students and young scientists in a number of workshops throughout the year.

User's acknowledgement in publications

CMS users are obliged to give credit to the CIISB research infrastructure in all articles/publications/texts published on the basis of measurements made under the CIISB research infrastructure while using the following formulation:

We acknowledge CIISB, Instruct-CZ Centre of Instruct-ERIC EU consortium, funded by MEYS CR infrastructure project LM2018127 and European Regional Development Fund-Project „UP CIISB“ (No. CZ.02.1.01/0.0/0.0/18_046/0015974), is gratefully acknowledged for the financial support of the measurements at the CF [name of the unit/CF].

Or in the short forulation:

We acknowledge CMS-Biocev ("Biophysical techniques, Crystallization, Diffraction, Structural mass spectrometry”) of CIISB, Instruct-CZ Centre, supported by MEYS CR (LM2018127) and CZ.02.1.01/0.0/0.0/18_046/0015974.

Core facilities

CF Biophysical Techniques

The core facility Biophysical techniques enables assessment of the quality, stability and interaction properties of hundreds of biomolecular samples of many structural biology projects, be it regular checks, thorough analysis of properties or optimization of molecular constructs or handling protocols.

CF Crystallization of Proteins and Nucleic Acids

The core facility Crystallization of proteins and nucleic acids enables thousands of crystallization experiments using robotic or manual setup, automated monitoring of crystal growth, experiments at selected temperatures or under defined conditions, to prepare samples for further crystallographic studies.

CF Diffraction techniques

The core facility devoted to diffraction analysis offers crystal quality screening, in situ crystal testing, single crystal data collection and processing, small angle X-ray scattering (SAXS) experiments with robotic sample loading and online UV-VIS spectrometry, and SAXS data processing. Hundreds of samples are processed per year in the self-assisted mode or with full staff support.

CF Structural Mass Spectrometry

The core facility Structural mass spectrometry provides analyses of hundreds of samples and supports many internal and external structural biology projects. The main focus of the services lies in monitoring of proteins structural changes and protein-protein interaction by chemical cross-linking and hydrogen-deuterium exchange.


The Centre of Molecular Structure is financially supported by the MEYS project LM2018127 Czech Infrastructure for Integrative Structural Biology (CIISB), CIISB4HEALTH (CZ.02.1.01/0.0/0.0/16_013/0001776), UP CIISB (CZ.02.1.01/0.0/0.0/18_046/0015974), and ELIBIO (CZ.02.1.01/0.0/0.0/15_003/0000447)

Additional information

How to apply for the measurement: https://stigmator.ceitec.muni.cz/project_form/

Czech Infrastructure for Integrative Structural Biology https://www.ciisb.org/

BIOCEV web pages of CMS https://www.biocev.eu/cs/infrastruktury-a-servisni-laboratore/centrum-molekularni-struktury.3

Instruct-ERIC infrastructure web pages https://www.instruct-eric.eu/centre/biocev/

Please contact Ing. Jan Dohnálek, Ph.D. for more information.

Alblová Miroslava, RNDr., Ph.D.
Dohnálek Jan, Ing., Ph.D.
Dzmitruk Volha
Charnavets Tatsiana, Ph.D.
Klepoch Marco
Nepokojová Tereza, Mgr.
Pavlíček Jiří, RNDr., Ph.D.
Pompach Petr, RNDr., Ph.D.
Stránský Jan, Ing., Ph.D.
Stránský Jan, Ing., Ph.D.
Vaňková Pavla, Mgr., Ph.D.

CF Biophysical methods

  • Characterisation of intermolecular interactions
    • Calorimetry
    • Surface plasmon resonance
    • Microscale thermophoresis
  • Charcterisation of molecular state in solution
    • CD spectrometry
    • Dynamic light scattering
    • Differential scanning fluorescence
  • Time resolved spectroscopies

CF Crystallization of Proteins and Nucleic Acids

  • Classical and robotic crystallogenesis with remote experiment monitoring in three dedicated laboratories with strictly controlled temperature regimes with full backup
    • Room temperature
    • Cold room
    • Warm room
  • Automated screening of variation of crystallization conditions and its effects
    • Room temperature
    • Cold room
  • Anaerobic crystallization and manipulation of biomacromolecules

CF Diffraction Methods

  • Single crystal X-ray diffraction
    • Cryo conditions
    • Room temperature
    • Controlled humidity or crysal dehydratation
    • In-situ in crystallization plates
  • Small angle X-ray scattering
    • Characterization in solution
    • Automatic measurements
    • In-situ UV-Vis spectroscopy
    • SEC-SAXS

CF Structural Mass Spectrometry

  • Separation of protein mixtures
  • Intact protein analysis
  • Peptide/protein/metabolite profiling
  • Protein identification
  • Characterization of protein modifications
  • Protein/metabolite quantification
  • Protein surface covalent labelling
  • Chemical cross-linking
  • H/D exchange
  • Data processing and interpretation of mass spectrometric data

CF Biophysical Methods

contact: Tatsiana Charnavets

  • Surface Plasmon Resonance (SPR) system ProteOn XPR36 (BioRad)
  • Circular dichroism (CD) spectrometer Chirascan Plus (Applied Photophysics)
  • Monolith microscale thermophoresis (MST) NT.115 (Nano Temper)
  • Monolith microscale label free thermophoresis NT.LabelFree (Nano Temper)
  • Isothermal titration calorimeter MicroCal iTC200 (Malvern Panalytical)
  • Dynamic light scattering (DLS) technique  Zetasizer Nano ZS90 (Malvern Panalytical)
  • Multi-angle dynamic light scattering (MADLS) technique Zetasizer Ultra (Malvern Panalytical)
  • Differential scanning fluorescense (DSF) assay Prometheus NT.48 (Nano Temper)
  • UV/Vis Spectrometer Specord 50 Plus (Analytica Jena)
  • Modular fluorescence spectrometer FLS1000 (Edinburgh Instruments)
  • with SuperK EXTREME, a supercontinuum white light laser (NKT Photonics)
  • FTIR spectrometer Vertex 70v (Bruker)
  • OCTET R8 (Sartorius)

CF Crystallization of proteins and nucleic acids

contact: Jiří Pavlíček

  • Crystallization robots
    • Gryphon (Art Robbins)
    • NT8 (Formulatrix)
  • General purpose pipetting robot OT-2 (Opentrons)
  • Crystallization hotel RI1000 (Formulatrix)
  • Crystallization hotel RI182 (Formulatrix) in low temperature
  • Stereomiroscopes (Olympus)
  • Cold room, warm room
  • Cryo storage for crystals
  • Glovebox with stereomicroscope (GS)
  • SpectroLight 600 (Xtal Concepts)
  • SONICC (Formulatrix)
  • Vitrobot (Thermo Scientific)

CF Diffraction techniques

contact: Jan Stránský

  • D8 Venture (Bruker)
    • MetalJet D2 X-ray source (Excillum)
    • 4-circle goniometer
    • Detector Photon III 28
    • CryoStream 800 (Oxford Cryoscience)
    • In-situ plate holder ISX stage (Bruker)
    • Hummidity control HClab (Arinax)
  • SAXSpoint 2.0
    • MetalJet C2+ Xray source (Excillum)
    • Detector EIGER R 1M (Dectris)
    • ASX autosampler
    • CaryUV 60 (Agillent)
    • AktaGO (GE Healthcare)

CF Structural Mass Spectrometry

contact: Petr Pompach

  • 15T-SolariX XR FT-ICR mass spectrometer (Bruker Daltonics)
  • HPLC, UPLC (Agilent Technoligies)
  • Excimer laser (Coherent)
  • MALDI-TOF (Bruker Daltonics)
  • timsTOF Pro mass spectrometer (Bruker Daltonics)
  • HDX robot (Ophir Analytical)

Centre of Molecular Structure offers its services also to commercial users. Please, contact Jan Dohnálek for further details.

You can download services offered by the CMS here.

D8 HClab

D8 HClab







Mass Spectrometry

Mass Spectrometry