XIII Discussions, Nové Hrady, March 19 – 21 2015

Institute of Biotechnology AS CR
Institute of Nanobiology and Structural Biology, GCRC AS CR
South Bohemian University in České Budějovice
Czech Society for Structural Biology
proudly organize

XIII Discussions in Structural Molecular Biology 

Nové Hrady, Thursday March 19 – Saturday March 21 2015

Photos from the conference


The whole program takes place at Nový zámek.

All talks labeled (30′) take 30 minutes, all other take 20 minutes. These times will be observed and include discussion, leave at least 5 minutes to your colleagegues!

Thursday, March 19

10:30 12:30

Registration at Nový Zámek
12:30 13:30


Please note that the conference starts at 14:00

Opening of the XIII Discussions by Rector of South Bohemian University, Prof. Libor Grubhoffer
14:00 15:40 Session 1
Chairperson: Tomáš Obšil

Jiri Brynda Carborane-Based Inhibitors of Carbonic Anhydrases and their Potential for Cancer Therapy

Ales Hnizda Structural basis for hyperactivity of cN-II mutants

Jana Škerlová The unique mechanics of bacterial repressor DeoR: a structural study

Adriana Baumlová The crystal structure of the phosphatidylinositol 4-kinase IIα

Vladena Bauerová-Hlinková Insights into the structure of the human RyR2 N‑terminal region and its mutations responsible for cardiac arrhythmias
15:40 16:00

Coffee break
16:00 17:20 Session 2
Chairperson: Jan Dohnálek

Mariusz Jaskólski Modulated protein crystal structure with 28 molecules in the asymmetric unit

Kay Diederichs CC* – Linking crystallographic model and data quality (30)

Sergei Kalynych Structural studies of human parechovirus 1 (30)
17:20 17:35

Short break
17:35 18:35 Session 3
Chairperson: Miroslav Kloz

Tereza Skálová Structure of LLT1, a ligand for human NKR-P1, and its variability under various conditions

Jost Ludwig A refined atomic scale model of the yeast K+-translocation protein Trk1

Janos Hajdu The European XFEL and its potentials in structural biology
19:00 21:00


Friday, March 20

7:30 8:45

9:00 10:20 Session 4
Chairperson: Jiří Vondrášek

Jaroslav Koca Structural Bioinformatics – a Bridge between Structural Biology and Bioinformatics

Vladimir Sychrovsky The activation of N-glycosidic bond cleavage operated by hOGG1 enzyme can be specifically controlled by electrophilicity/nucleophilicity

Lada Biedermannová Hydration of amino acid residues in proteins: what can we learn from data mining?

David Jakubec Large-scale quantitative assessment of binding preferences in protein – nucleic acid complexes
10:20 10:40

Coffee break + observation of a partial solar eclipse
10:40 12:20 Session 5
Chairperson: Jaroslav Koča

Alan Kádek Structural dynamics of WrbA protein probed by mass spectrometry

Petr Man Hydrogen/deuterium exchange: moving from easy proteins to real life stories

Tomáš Náhlík Description of Algorithm for Analysis and 3D Reconstruction of Living Cell Inner Structures from Bright-Field Microscopy

Lucie Bednarova Spectroscopic studies of phosphoenolpyruvate carboxykinase from Mycobacterium tuberculosis

Dalibor Stys
Measurement in biological systems

Vladimír Sklenář Brief information about the Czech Infrastructure for Integrative Structural Biology, CIISB
12:30 13:45

14:00 15:40 Session 6
Chairperson: Bohdan Schneider

Piotr Wardega Quantitative analysis of biomolecular interactions with Microscale Thermophoresis (MST)

Dhiraj Sinha Interdomain interaction in the motor subunit of the type I restriction-modification system EcoR124I and their functional relevance

Tatsiana Charnavets Repetitive extragenic Palindroms from Haemophilus Parasuis and their associated transposase RAYT

Miroslav Kloz Coherent Raman spectroscopy – nonivasive structural tool for time resolved structures

Salome Kylarova Structural studies of ASK1-TBD:TRX1 complex by fluorescence spectroscopy and SAXS

Tomas Klumpler Biological Small Angle X-ray Scattering at CEITEC-MU
15:40 16:00

Coffee break
16:00 18:00 Session 7
Chairperson: Jindřich Hašek

Irena Kratochvilova Theoretical and Experimental Study of Charge Transfer Through DNA: Impact of Mercury Mediated T-Hg-T Base Pair

Babak Minofar The interactions of soil natural organic matter (NOM) and polycyclic aromatic hydrocarbon (PAH) with biological interfaces studied by MD simulations

Renata Rychtarikova Analysis of living cell 3D inner structures from high-resolution bright-field microscopy

Hedi Hegyi Enhancer-promoter interaction facilitated by transiently forming G-quadruplexes

Charles Sabin Using Non-Crystallographic-Symmetry to solve the structure of a perfect merohedral twin crystal of Aichi virus (AiV)

Daniel Nemecek Molecular Architecture of Encapsulin Nanocompartments
18:15 19:30

19:30 20:45

General Assembly of the Czech Society for Structural Biology. Meeting will be held in the Czech and/or Slovak languages

Program Valného shromáždění ČSSB 1. Volba zpisovatele

2. Schválení programu

3. Výroční zpráva Rady ČSSB o činnosti a hospodaření

4. Schválení výroční zprávy Rady ČSSB o činnosti a hospodaření

5. Zpráva revizní komise

6. Stav infrastrukturních center se vztahem ke strukturní biologii

7. Návrh úprav stávajících stanov ČSSB podle nového Občanského zákoníku, diskuze

8. Hlasování – schválení nové verze stanov ČSSB

9. Různé

10. Volby Rady ČSSB (zajistí volební komise)

11. Diskuse, úkoly pro novou Radu
21:00 23:00 Poster session Presented posters are listed below

Saturday, March 21

7:30 8:45

9:00 10:30 Session 8
Chairperson: Michaela Wimmerová

Radovan Dvorsky Miracle of multi-domain proteins: a case study of ROCK Kinase

Petra Babková Understanding structure-function relationships of haloalkane dehalogenaseS by ancestral sequence reconstruction

Zora Nováková Structural characterization of interactions between human glutamate carboxypeptidase II and hydroxamate-based inhibitors

Ladislav Bumba Probing metal-ion-assisted π−π interaction in self-processing module of FrpC protein

Tomasz Kabzinski Structural basis for transcription termination coupled to RNA processing/degradation (30)
10:30 10:50

Coffee break
10:50 12:40 Session 9
Chairperson: Lukáš Žídek

Klaudia Šarmírová Functional analysis of a novel haloalkane dehalogenase DsvA isolated from thermophilic bacterium Saccharomonospora viridis DSM 4

Magdalena Krejcikova Combining NMR and Raman spectroscopy reveals structural and functional features of a new cisplatin derivative

Vojtech Kuban NMR Structural Study of Self-Processing Module

Petr Těšina LEDGF/p75 as a Target for Treatment of MLL-Dependent Lekemia and HIV Infection

Jozef Hritz Complex binding scheme between 14-3-3zeta and phosphoproteins elucidated by NMR and computational studies (30)
12:45 14:00


Posters (presented Friday, March 20, 21 – 23 o’clock)

KristýnaBoušováPIP2 and PIP3 interact with N-terminus region of TRPM4 channel
PetrČechAutomatic workflow for the classification of local DNA conformations
JiříČernýModeling of blocking of NMDA receptor channel by endogenous neurosteroids
DominikaChalupskáMechanism of phosphatidylinositol 4-kinase IIIβ inhibition
JindrichFanfrlikThe Semiempirical Quantum Mechanical Scoring Function for In-Silico Drug Design
KarlaFejfarováPDBCOP: PDB Comparison Program
JindrichHasekReceptors expressed on the natural killer cells; Review of the molecular structure data
KatarínaHlat-GlembováIdentification of the Catalytic residues of glycosidases from Paenibacillus thiaminolyticus as a way to engineering of new glyco
JosefHouserPossibilities for biomacromolecular crystallization at BIC Core Facility at CEITEC, Brno
DominikHrebíkNMR relaxation studies of receiver domain of cytokinin receptor CKI1RD mutants from Arabidopsis thaliana
KristýnaHudcováSpectral and electrochemical analysis of miR-34a-5p
AdelaJilkovaActivation route of the Schistosoma mansoni cathepsin B1  drug target
MichaelaJirkůPIP2 interact with cytosolic N-terminal region of the melastatin channel TRPM1
MiroslavaKacirovaStructural characterization of phosphoprotein phosducin and its interaction with 14-3-3
RadkaKončitíkováStructure-function study on plant aldehyde dehydrogenases from family 2 and family 7
MiroslavaKopeckaStructural study of the yeast enzyme neutral threhalase and its complex with the14-3-3 protein 
DavidKopečnýSite-directed mutagenesis of two nucleoside N-ribohydrolases from maize
DaliborKosekSedimentation analysis of the interaction between ASK1 and its binding partners
TereziaKovalovaCrystallographic and catalytic study of α-L-fucosidase from Paenibacillus thiaminolyticus
ZuzanaKovářováProteolytic system of blood-feeding ticks: an update on protein structures
TomášKroupaRetroviral matrix proteins interaction with membranes
MonikaKrupováStudies of Lanthanide Complexes by a Combination of Spectroscopic Methods
KatsiarynaTratsiakStructure-functional analysis of the haloalkane dehalogenase  DmxA from Marinobacter sp. ELB17
PetrLousaMonitoring of phosphorylation progress of tyrosine hydroxylase and interaction with 14‑3‑3zeta elucidated by NMR
VáclavMareškaRole of CH/π interactions in stabilizing the protein-carbohydrate complex
KatarinaMuchovaLink between cytoskeleton and spore formation in Bacillus subtilis
GaborNagyMolecular Interactions of the 14-3-3-zeta protein
IvaNečasováBiophysical and structural studies of a new type of transposases – RAYTs
VítNovákSpectra Modelling Combining Molecular Dynamics and Quantum Mechanics
JiříPavlíčekStructural and Functional Studies of Human Histone Deacetylase 6
HanaPetrokovaInhibitory protein variants derived from an albumin-binding domain scaffold targeting human IL-23 cytokine
OlíviaPetrvalskáStructural analysis of the ASK1-CD:14-3-3 complex by small angle X-ray scattering
TatyanaPrudnikovaStructure-functional studies of haloalkane dehalogenases
JakubPtáčekEngineered Anticalins targeting human prostate-specific membrane antigen
DavidŘehaStructural characterization of NAD(P)H:quinone oxidoreductase WrbA from E. coli in complex with benzoquinone
MohammadmehdiSaberioonApplication of Multispectral Cameras for estimating Nitrogen and  Grain Yield in Paddy fields
TanvirShaikhIntegration of SPIDER workflows into Scipion for user-friendly analysis of electron microscopy data
MartaSiborovaMechanism of Staphylococcus aureus cell wall penetration by phage phi812/K1
RadimSkoupýCryoEM reconstruction of small nucleoprotein complexes:  Application to the EcoR124I restriction-modification enzyme
MichalŠkultétyTheoretical study of carbonic anhydrase IX
VojtechSpiwokAltruistic metadynamics
JaroslavSrpA Plant-Insect Interaction in 3D
JanStránskýInfluence of phosphate ion bound to active center of TBN1
ZoranŠućurHomology modeling of GPCR: oxytocin receptor
LeonaŠvecováStructure of Bilirubin oxidase from Myrothecium verrucaria with ligand in active site
EkaterinaSviridovaCrystallographic characterization of the outer memberane lipoprotein FrpD from Neisseria Meningitidis
MáriaTrundováExpression of toxic recombinant proteins for structural studies in the E. coli Lemo21(DE3) expression system
ZoricaUbiparipStructural Analysis of Frog Virus 3 by Electron Microscopy and Tomography: Composition and Morphology of its Large Virion
AnnaZhyrovaPhase transition approach on the interpretation of the chemical oscillation in the Belousov-Zhabotinsky reaction

Deadline for registration and submission of abstracts was Friday February 20 2015

If still missing, please, send your abstracts as attachment in word.docx format to kuzel-at-karlov.mff.cuni.cz 

Deadline for the payment is Friday March 6 2015

Abstracts of all contributions of the XIII Discussions

Photos from the conference by Bohdan Schneider, photos by Radek Kuzel.

The conference has been supported by program “Education for Competitiveness) of the Ministry of Education, Youth, and Sports of the Czech Republic, more information about the program in the Czech language are here.

Konference byla podpořena programem OP VK Ministerstva školství, mládeže a tělovýchovy. Více informací o programu lze nalézt zde.


Organizers of the meeting Bohdan Schneider, Radek Kužel, Ivana Kutá-Smatanová, Rudiger Ettrich, Jindřich Hašek, Jan Dohnálek