mouse.belozersky.msu.ru

S&S

The page of the interdisciplinary seminar/working group based on the Department of Mathematical Methods in Biology. Of AN Belozersky Institute. In investigations of biological features and 'living systems' we try to follow the approaches of Izrael Gelfand, the organizer of the Department. 151; a database of structures of DNA-protein and RNA-protein complexes. Old version of NPIDB. 151; a probe-level annotation database for Affymetrix expression microarrays. Genome assembly and annotation. 151; structural...

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S&S | mouse.belozersky.msu.ru Reviews

<META> DESCRIPTION

The page of the interdisciplinary seminar/working group based on the Department of Mathematical Methods in Biology. Of AN Belozersky Institute. In investigations of biological features and 'living systems' we try to follow the approaches of Izrael Gelfand, the organizer of the Department. 151; a database of structures of DNA-protein and RNA-protein complexes. Old version of NPIDB. 151; a probe-level annotation database for Affymetrix expression microarrays. Genome assembly and annotation. 151; structural...

<META> KEYWORDS

1 structures and sequences

2 moscow state university

3 our projects

4 data base

5 npidb

6 plandbaffy

7 tools

8 clud

9 conclus

10 svetka

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structures and sequences,moscow state university,our projects,data base,npidb,plandbaffy,tools,clud,conclus,svetka,nhunt,npg explorer,plot hits,wlake,malakite,blocks 3d/pair cores,proton,architectures,and structural motifs,gcore,lcore,structalign,mtpro

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S&S | mouse.belozersky.msu.ru Reviews

https://mouse.belozersky.msu.ru

The page of the interdisciplinary seminar/working group based on the Department of Mathematical Methods in Biology. Of AN Belozersky Institute. In investigations of biological features and 'living systems' we try to follow the approaches of Izrael Gelfand, the organizer of the Department. 151; a database of structures of DNA-protein and RNA-protein complexes. Old version of NPIDB. 151; a probe-level annotation database for Affymetrix expression microarrays. Genome assembly and annotation. 151; structural...

INTERNAL PAGES

mouse.belozersky.msu.ru

1

wLake program homepage

http://mouse.belozersky.msu.ru/~evgeniy/cgi-bin/wLake/wLake.php

WLake is a tool which allows to identify clusters of a structural water molecules in given superimposed 3D structures. Put your coordinates in PDB format into the text area. Select a distance threshold. Two water molecules from different structures will be concidered as located in the same space point if the distance between centers of oxygen atoms is less than this threshold. Select a minimal cluster size (from 2 to number of superimposed structures) and press Submit button. Submit a file in PDB format.

2

MotAn homepage

http://mouse.belozersky.msu.ru/motan

Alyzer (ver. beta.1603061903). MotAn detects structural motifs. Older version of MotAn is available. Outline of MotAn algorithm: 1. Protein structure in PDB format and β-sheet maps. And boudaries of α-helixes are taken as input.2. Structural motifs. Start new MotAn job. Beta;-strands and α-helixes. Please, cite: Aksianov E. Motif Analyzer for Protein 3D Structures. J. Struct. Biol. Work on this service is supported by Russian Foundation of Basic Research, grants 13-07-00969 and 14-04-31709 mol a.

3

Blocks finder

http://mouse.belozersky.msu.ru/tools/malakite.html

A program for automatic detection of aligned blocks in multiple protein alignment. Paste your alignment in fasta-format here:. Or upload from file:. Sample alignment in fasta-format (A4 extra Pfam family seed):. APLP2 RAT/42-204 GTGFAVAEPQIAMFCG.KLNMHVNIQTGKWEPDPTGTK.SCLGTKEEVLQYCQEI YPELQITNVMEANQPVNIDSWCRRD.KKQCRSH.IVIPFKCLVGEFVSDVLLVPEN CQFFHQERMEVCEKHQRWHTVVKEACLTE.GMTLYSYGMLLPCGVDQFHGTEYVC CP A4 HUMAN/24-188 GNAGLLAEPQIAMFCG.RLNMHMNVQNGKWDSDPSGTK.TCIDTKEGILQYCQEV YPELQITN...

4

S&S: Projects

http://mouse.belozersky.msu.ru/projects.html

List of 3D structures of components of restriction-modification systems with links to NPIDB. Comparison of protein phylogeny reconstruction methods. Nhunt, a program for similarity search of nucleic sequences. Results on genome word compositions and contexts of mutations. Bacterial secretion systems of type III.

5

NPG-explorer

http://mouse.belozersky.msu.ru/tools/npge.html

NPG-explorer, Nucleotide PanGenome explorer. Create a directory for the results. Prepare files with genomes. Input file: table of genomes. Examples of genomes.tsv. Open the command line. Prepare sequences and genes. Set values of global options. Check nucleotide pangenome (optional). Run post-processing of nucleotide pangenome. View results in graphical user interface. Requirements of a good pangenome. Prebuild static executables for Windows and Linux. Sudo apt-get install libqtgui4. With the actual path.

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S&S

The page of the interdisciplinary seminar/working group based on the Department of Mathematical Methods in Biology. Of AN Belozersky Institute. In investigations of biological features and 'living systems' we try to follow the approaches of Izrael Gelfand, the organizer of the Department. 151; a database of structures of DNA-protein and RNA-protein complexes. Old version of NPIDB. 151; a probe-level annotation database for Affymetrix expression microarrays. Genome assembly and annotation. 151; structural...

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