Validation of macromolecular crystal structures
Řezáčová, Pavlína
2003 - Czech X-ray crystallography is the main technique of macromolecular structure determination. Typical problems of protein crystallography diffraction data measured at limited resolution and inaccurate phase informacion adversely affect the quality of electron density maps and consequently the quality of the final model. Currently, there are many methods of protein quality validation. These can be subdivided into two main groups The first group assesses the model quality by evaluating the agreement of the model with the diffraction data. The second group of structure validation methods is based on comparison of the macromolecular model geometrical parameters with standards values derived from the crystal structures of small molecules or high-resolution macromolecular structures. This work is focused on introduction to widely used macromolecular structure-validation software. The main global quality criteria and reliable indicators for detecting local errors are summarized. Rentgenová krystalografie je hlavní technikou získání detailní informace o atomové struktuře makromolekul. Typické problémy makromolekulární krystalografie: difrakční data získaná na omezeném rozlišení a nepřesná fázová informace, nevyhnutelně ovlivňují kvalitu map elektronových hustot a následně se odrazí i v kvalitě konečného modelu.Dnes existuje mnoho metod pro ověření kvality modelu, které lze rozdělit do dvou základních skupin. První skupina hodnotí kvalitu modelu podle jeho shody s experimentálními daty. Druhá skupina ověřovacích metod hodnotí geometrické parametry modelu srovnáním se standardními hodnotami odvozenými z krystalových struktur malých molekul nebo struktur makromolekul určených na vysokém rozlišení. Tato práce je věnována představení běžně používaných počítačových programů využívajících obou výše zmíněných metod hodnocení kvality a ověřování struktur makromolekul. Jsou zde shrnuty ukazatele a měřítka kvality užívaná při hodnocení krystalových struktur makromolekul. Keywords: protein crystallography; validation; stereochemistry Available at various institutes of the ASCR Validation of macromolecular crystal structures

X-ray crystallography is the main technique of macromolecular structure determination. Typical problems of protein crystallography diffraction data measured at limited resolution and inaccurate phase ...

Řezáčová, Pavlína
Ústav molekulární genetiky, 2003

Processing of Diffraction Data Obtained by Oscillation Method on Crystals of Biological Macromolecules
Brynda, Jiří
2003 - Czech The components of monochromatic diffractometer suitable for data collection on crystals of biological macromolecules are described, as well as basics of rotation method. The optimal strategy for collecting X-ray diffraction data from macromolecular crystals is discussed. The geometric factors influencing the completeness of data are arising from the symmetry of the reciprocal lattice and from the experimental setup; they affect quantitatively the completeness of the measured set of reflections. Příspěvek popisuje jednotlivé komponenty monochromatického difraktometru vhodného pro měření krystalů biologických makromolekul a také základní principy rotační metody. Optimální strategie pro měření difrakčních dat na krystalech makromolekul je diskutována. Geometrické faktory ovlivňující kompletnost dat jsou symetrie reciproké mřížky a geometrické uspořádání jednotlivých komponent monochromatického difraktometru, které ovlivňují kvantitativně kompletnost měřených dat. Keywords: X-ray data collection, rotation method, X-ray diffractometer Available at various institutes of the ASCR Processing of Diffraction Data Obtained by Oscillation Method on Crystals of Biological Macromolecules

The components of monochromatic diffractometer suitable for data collection on crystals of biological macromolecules are described, as well as basics of rotation method. The optimal strategy for ...

Brynda, Jiří
Ústav molekulární genetiky, 2003

Sperm surface proteins of spermatozoa and proteins of seminal plasma in fertilization
Jonáková, Věra; Maňásková, Pavla; Jelínková, Petra; Balínová, P.; Tichá, M.
2002 - Czech Mammalian fertilization involves highly regulated biochemical events. We aimed at study of interaction of seminal plasma proteins with sperm and at mutual interactions of proteins from seminal plasma. Savčí fertilizace zahrnuje vysoce regulované biochemické děje. My jsme se zaměřili na studium interakce proteinů semenné plasmy se spermií a na vzájemné interakce proteinů ze semenné plasmy. Keywords: fertilization; proteins of seminal plasma; spermatozoa; hnojení Available at various institutes of the ASCR Sperm surface proteins of spermatozoa and proteins of seminal plasma in fertilization

Mammalian fertilization involves highly regulated biochemical events. We aimed at study of interaction of seminal plasma proteins with sperm and at mutual interactions of proteins from seminal ...

Jonáková, Věra; Maňásková, Pavla; Jelínková, Petra; Balínová, P.; Tichá, M.
Ústav molekulární genetiky, 2002

Serine proteinase inhibitors isolated from boar seminal plasma
Jelínková, Petra; Maňásková, Pavla; Tichá, M.; Jonáková, Věra
2002 - English Serine proteinase inhibitors were found in boar seminal plasma. The work was concentrated on isolation and characterization of proteinase inhibitors and study of the existence of inhibitors in complexes with other proteins in seminal plasma. Keywords: proteinase inhibitors; seminal plasma; proteins; bílkoviny Available at various institutes of the ASCR Serine proteinase inhibitors isolated from boar seminal plasma

Serine proteinase inhibitors were found in boar seminal plasma. The work was concentrated on isolation and characterization of proteinase inhibitors and study of the existence of inhibitors in ...

Jelínková, Petra; Maňásková, Pavla; Tichá, M.; Jonáková, Věra
Ústav molekulární genetiky, 2002

Cryocrystallography of biological Macromolecules
Řezáčová, Pavlína
2002 - English Crystals of biological macromolecules at near to room temperature are sensitive to X-rays and frequently suffer from radiation damage, especially when X-ray experiments are carried out on highly intense synchrotron beamlines. Performing such experiments at cryogenic temperatures greatly reduce, or eliminate radiation damage and thus produce higher quality diffraction data. Keywords: cryocrystallography; radiation demage; protein crystals Available at various institutes of the ASCR Cryocrystallography of biological Macromolecules

Crystals of biological macromolecules at near to room temperature are sensitive to X-rays and frequently suffer from radiation damage, especially when X-ray experiments are carried out on highly ...

Řezáčová, Pavlína
Ústav molekulární genetiky, 2002

Phytoremediation and biodegradation of PCB in soil
Ryšlavá, E.; Krejčík, Zdeněk; Macek, Tomáš; Macková, M.
2002 - English This is a part of the research work focused on study of possible mutual relationships of microorganisms and plants in PCBs metabolism. Polluted soil was obtained from a site which has been contaminated by PCBs for a long time. This soil was used for isolation of bacteria whixh potentially participate in biolodegradation of PCBs. The same contaminated soil was used for experiments under real conditions. Within six months three plant species were cultivated-tobaco (Nicotiana tabacum), black nighshade (Solanum nigrum) and alfalfa (Medicago sativa) - and decrease of PCBs was measured. Keywords: Fytoremediation; biodegradation; PCB Available at various institutes of the ASCR Phytoremediation and biodegradation of PCB in soil

This is a part of the research work focused on study of possible mutual relationships of microorganisms and plants in PCBs metabolism. Polluted soil was obtained from a site which has been ...

Ryšlavá, E.; Krejčík, Zdeněk; Macek, Tomáš; Macková, M.
Ústav molekulární genetiky, 2002

Bioinformatics: Tools for analysis of biological sequences
Pačes, Jan
2001 - English The field of Genomics is aimed at complex analysis of genomes based on our knowledge of the nucleotide sequences in DNA. Bioinformatics is a tool for analysis of the long strings of nucleotide or aminoacid sequences. Here we describe basic methods of bioinformatics. Keywords: bioinformatics; stringology Available at various institutes of the ASCR Bioinformatics: Tools for analysis of biological sequences

The field of Genomics is aimed at complex analysis of genomes based on our knowledge of the nucleotide sequences in DNA. Bioinformatics is a tool for analysis of the long strings of nucleotide or ...

Pačes, Jan
Ústav molekulární genetiky, 2001

DNA vaccination
Plachý, Jiří
2001 - English We have evalueted the protective activity of v-src-derived DNA vaccines against growth of v-src-induced tumors in congenic chicken lines. Keywords: v-src-specific immunity; DNA vaccination; chicken MHC (B) Available at various institutes of the ASCR DNA vaccination

We have evalueted the protective activity of v-src-derived DNA vaccines against growth of v-src-induced tumors in congenic chicken lines.

Plachý, Jiří
Ústav molekulární genetiky, 2001

The significance of genomics for biomedicine
Pačes, Václav
2000 - Czech Available at various institutes of the ASCR The significance of genomics for biomedicine

Pačes, Václav
Ústav molekulární genetiky, 2000

Genomics - Science for the 21st Century
Pačes, Václav
2000 - Czech Available at various institutes of the ASCR Genomics - Science for the 21st Century

Pačes, Václav
Ústav molekulární genetiky, 2000