Research Infrastructure

Computer Modelling

Hardware

• 22 nodes, 2x 10-core Intel Xeon, 378 GB RAM, 2x NVIDIA K2 GPU, 300 GB HDD
• 7 nodes, 2x 8-core Intel Xeon, 128 GB RAM, 1200 GB HDD
• 12 nodes, 6-core Intel Xeon, 12 GB RAM, 600 GB HDD
• 2 nodes, 48-core AMD Opteron, 32 GB RAM, 600 GB HDD
• Oculus Rift virtual reality headset

Software

• AMBER, University of California, San Francisco, USA
• AUTODOCK, The Scripps Research Institute, La Jolla, USA
• BIOEDIT, North Carolina State University, Raleigh, USA
• CAVER, CaverSoft, Czech Republic
• CHARMM, Harvard University, Cambridge, USA
• DOCK, University of California, San Francisco, USA
• FOLD-X, European Molecular Biology Laboratory, Germany
• GAMESS-UK, Daresbury Laboratory, Daresbury, UK
• GAUSSIAN, Gaussian, Inc., Carnegie, USA
• MODELLER, University of California, San Francisco, USA
• MOPAC, Fujitsu Ltd., Japan
• ROSETTA, University of Washington, Seattle, USA
• SIMCA, Umetrics, Umea, Sweden
• STATISTICA, StatSoft, Inc., Tulsa, USA
• TRITON, Masaryk University, Brno, Czech Republic
• VECTOR NTI, Emory University, Atlanta, USA
• WHATIF, the University of Nijmegen, The Netherlands

Molecular Biology

Laboratory of Molecular Biology

• Electroporator ECM 399 Generator, BTX, Canada
• Rapid Translation System ProteoMaster, Roche, France
• Biohazard BoxBioban 48, Steril, Italy
• Biohazard Box Safe Fast Light
• Biological Thermostat BT 120M, Laboratory equipment Prague, Czech Republic
• Max Pro Thermal Cycler, Esco Healthcare Ltd., UK (2x)
• Block Heater HB-1, Wealtec Corp., USA
• Dry Bath Incubator, Major Science, USA
• Centrifuge Mikro 120, Hettich, Germany
• Centrifuge Mikro 20, Hettich, Germany
• Centrifuge Cooled Micro 200R, Hettich, Germany
• Concentrator centrifuge DNA 120-230 SpeedVac, Thermo, USA
• Vibrax VRX Basic, IKA Laboratory Equipment, Germany

Laboratory of Robotic Screening and Protein Purification

• Colony Picking Robot CP7200, Norgren System, USA
• Liquid Handling Robot Microlab StarLet Manuload, Hamilton, USA
• Microplate Reader Tecan Sunrise, Tecan, Switzerland
• Microplate Reader FLUOstar OPTIMA, BMG Labtech, Germany
• FPLC BioLogic DuoFlow, Bio-Rad, USA (2x)
• FPLC Akta Purifier 10, GE Healthcare, USA (2x)
• Shaking Water Bath GLS Aqua Plus, Grant Instruments, UK (3x)

Enzymology and Microbiology

Laboratory of Fermentations

• Bioreactor Biostat B Plus (vessel 1 and 2, 1.0 L), Sartorius Stedim, Germany
• Bioreactor Labfors 3 (7.5 L), Infors HT, Switzerland
• Bioreactor Labfors 3 (2.0 L), Infors HT, Switzerland
• Mini-PROTEAN Tetra Electrophoresis System, Bio-Rad, USA
• Sub-Cell GT Agarose Gel Electrophoresis System, Bio-Rad, USA
• BioDoc-It 220 Imaging System UVP with transilluminator M-26r, UVP, USA
• Gel Dryer Cleaver, Cleaver Scientific, UK
• Biological microscope LMI B, Intraco Micro, Czech Republic
• Stereomicroscope STM 701, Intraco Micro, Czech Republic

Technology Room

• Sonic Dismembrator FB705, Fisher Scientific, USA
• Ultrasonic Processor, Hielscher UP200S, Germany
• Select Neptune Ultimate, Milli Q water, Purite Ltd., UK
• Centrifuge 6K15, SIGMA Laborzentrifugen, Germany
• Centrifuge 6K16, SIGMA Laborzentrifugen, Germany (2x)
• Centrifuge 2-16K, SIGMA Laborcentrifugen, Germany
• High-Performance Centrifuge Avanti J-30I, Beckman Coulter, USA
• Ultralow Temperature Freezer Innova U725, New Brunswick Scientific, USA
• Orbital Incubator Innova 44, New Brunswick Scientific, USA (3x)
• Freeze Dryer ALPHA 1-2 LD, Martin Christ, Germany
• Freeze Dryer Scanvac CoolSafe, Labogene, Denmark
• Ice Flaker GB 902, Brema Ice Makers, Italy
• Shaking Incubator NB-205, N-Biotek Inc., South Korea (3x)
• Thermal Incubator MIR-262, Sanyo, Japan
• pH meter CyberScan pH1500, Eutech Instruments, USA
• Analytical Balances AP-225V, Phoenix Instrument, Germany
• Balances ACB-300, Adam Equipment, UK
• Precision Electronic Balance HR120, A&D, Japan

Washing Room

• Autoclave, Tuttnauer 2540EL, The Netherlands
• Autoclave, Tuttnauer 5075 ELVC, The Netherlands
• Autoclave MLS-3780 78L, Sanyo, Japan
• Autoclave MLS-3781 78L, Sanyo, Japan
• Dish Washer Miele G7883CD, Miele, Germany
• Drying Owen MOV-212, Sanyo, Japan

Laboratory of Enzyme Kinetics

• Isothermal Titration Calorimeter VP-ITC, GE Healthcare, USA
• Differential Scanning Microcalorimeter VP-Capillary DSC, GE Healthcare, USA
• Gel permeation chromatography system with tetra detection (UV, IR, refractive index, RALS/LALS), Malvern, UK
• Microplate Reader Synergy H4, BioTek, USA
• Rapid Quench-Flow, QFM-400, Biologic, France
• Shaker GFL 3006, GFL, Germany
• Spectrophotometer Ultrospec 1000, Pharmacia Biotech, Sweden
• Spectrophotometer Biomate 3S, Thermo Scientific, USA
• Spectropolarimeter Chirascan, Applied Photophysics, UK
• Spectrofluorometer FloroMax-4, HORIBA Jobin Yvon, France
• Stopped-Flow SFM-300/MOS-200 (UV-VIS, fluorescence, anisotropy, t-Jump), Biologic, France
• Stopped-Flow SFM-300/MOS-500 (UV-VIS, circular dichroism, fluorescence, anisotropy), Biologic, France
• UNcle with fluorescence, SLS and DLS mode, Unchained Lab, USA
• Thermostatic Water Bath GLS400 (shaking), Grant, UK
• Thermostatic Water Bath OLS200 (shaking) with a cooling system, Grant, UK
• Thermostatic Water Bath GLS Aqua 18 Plus (shaking), Grant, UK
• Vacuum Rotavapor R-215 Professional, Buchi Labortechnik, Switzerland
• Vacuum Pump V-700, Buchi Labortechnik, Switzerland
• Vacuum Controller V-855, Buchi Labortechnik, Switzerland
• Crystal Gryphon,ARI – Art Robbins Instruments, USA

Chromatography

Laboratory of Gas and Liquid Chromatography

• Analytical Autocalibrated Balance, Adam AAA 160L, UK
• Gas Chromatograph 6890N (GC-2xFID), Agilent, USA
• Gas Chromatograph 7890A CTC sampler (GC-2xFID), Agilent, USA
• HPLC 1100 (UV-VIS, RID), Agilent, USA
• HPLC-IC, ICS-5000+, Thermo/Dionex, USA
• Mass Spectrometer 5975C MSD and Gas Chromatograph 7890A (GC-MS), Agilent, USA
• GC-MS Trace Ultra ISQ, Robotic sampler TriPlus RSH, The Thermo Scientific, USA
• Capillary electrophoresis, NEXT, Prince Technologies, The Netherlands

Laboratory of Microfluidics

• Mitos Dropix, Dolomite, United Kingdom
• Plasma system FEMTO, Diener, Germany
• IX51 Inverted Microscope, Olympus, Japan
• Fluorescence microscope MVX 10, Olympus, Japan
• 3D laser scanning microscope Lext OLS4100, Olympus, Japan
• i-SPEED TR camera, Olympus, Japan
• Fusion 200 syringe pumps, Chemyx, USA
• neMESYS low-pressure syringe pump system, Cetoni, Germany
• Microfluidic flow control system, Elveflow, France
• Puncher, Accu-Punch MP-10-UNV, Syneo, USA
• Spin Coater WS-650-23, Laurell Technologies Corporation, United Kingdom
• High-Performance SLA DLP 3D Printer Titan 2, Kudo3D, USA
• Laser engraver RayJet 50, Trotec Laser, Austria
• Capillary-based Microfluidic Platform, in-house

Computational Tools for Structural Biology

• A Linux-based workstation equipped with Nvidia 3D vision kit including 3D vision glasses
• XDS package for processing, indexing and merging crystallographic data (MPI, Heidelberg, Germany)
• iMOSFL package for processing, indexing and merging crystallographic data (MRC, Cambridge, UK)
• CCP4 suite with many useful tools/software for macromolecular crystallography (STFC Daresbury Laboratory, Warrington, UK)
• PHENIX: software for automated determination of molecular structures (University of California, Berkeley, USA)
• COOT: manual model building and interpretation of electron density maps (MRC, Cambridge, UK)