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NPIDB: Home

Database of structures of nucleic acid - protein complexes. Information on SCOP and Pfam domains detected in protein chains is presented. Kirsanov et al. NPIDB: nucleic acidprotein interaction database. Nucleic Acid Research, Volume 41 Issue D1 D517-D523 (January 2013). Structures of protein-nucleic acid complexes. Are extracted from Protein Data Bank. PDB) as files in the PDB format. As of 24.10.2017. The detection of Pfam domains. Are available for download or viewing with Jmol. List of SCOP domains.

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NPIDB: Home | npidb.belozersky.msu.ru Reviews

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Database of structures of nucleic acid - protein complexes. Information on SCOP and Pfam domains detected in protein chains is presented. Kirsanov et al. NPIDB: nucleic acidprotein interaction database. Nucleic Acid Research, Volume 41 Issue D1 D517-D523 (January 2013). Structures of protein-nucleic acid complexes. Are extracted from Protein Data Bank. PDB) as files in the PDB format. As of 24.10.2017. The detection of Pfam domains. Are available for download or viewing with Jmol. List of SCOP domains.

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NPIDB: Home | npidb.belozersky.msu.ru Reviews

https://npidb.belozersky.msu.ru

Database of structures of nucleic acid - protein complexes. Information on SCOP and Pfam domains detected in protein chains is presented. Kirsanov et al. NPIDB: nucleic acidprotein interaction database. Nucleic Acid Research, Volume 41 Issue D1 D517-D523 (January 2013). Structures of protein-nucleic acid complexes. Are extracted from Protein Data Bank. PDB) as files in the PDB format. As of 24.10.2017. The detection of Pfam domains. Are available for download or viewing with Jmol. List of SCOP domains.

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npidb.belozersky.msu.ru

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NPIDB: Download

http://npidb.belozersky.msu.ru/download.html

Download lists of data:. List of SCOP domains:. List of Pfam domains:. Download datasets in PDB format:. Complexes with DNA and RNA:. All home-maked (belozersky) biounits:. Download sets of representatives in PDB format:. Best representatives of Pfam domains:. Best representatives of SCOP domains:. Lists of Hbonds (txt, xml). Hydrophobic clusters (graph, txt). Secondary Structure of protein (txt). Sequences of macromoecules (fasta). Copy NPIDB team 2003 - 2016.

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NPIDB: Help

http://npidb.belozersky.msu.ru/help.html

Page of a complex. List of Pfam families. Page of a Pfam family. List of SCOP families. Page of a SCOP family. Nucleic acid protein interaction. Copy NPIDB team 2003 - 2016.

3

NPIDB: About Us

http://npidb.belozersky.msu.ru/about.html

NPIDB, Nucleic acid Protein Interaction DataBase provides an access to structured and organized information about all available structures of DNA protein and RNA protein complexes. The work on the database started in 1998 in Belozersky Institute. Of Moscow State University. Since 2003, the database is available online. Besides the data, NPIDB site provides an access to a number of home-made software tools for analyzing 3D structures of complexes. Nucleic Acids Research, V.44, Database issue 2016.

4

NPIDB: Pfam families

http://npidb.belozersky.msu.ru/pfam.html

List of available Pfam families. List of Pfam domains:. Pfam release : 27.0 Pfam-A families : 14830 Date : 2011-11 Based on UniProtKB : 2012 06. Best resolution complexes of Pfam family representatives, bound with nucleic acid. List of Pfam families detected in NPIDB entries:. 5'-3' exonuclease, C-terminal SAM fold. 5 3 exonuc N. 5'-3' exonuclease, N-terminal resolvase-like domain. ATPase family associated with various cellular activities (AAA). Part of AAA domain. Aconitase family (aconitate hydratase).

5

NPIDB: SCOP families

http://npidb.belozersky.msu.ru/scop.html

List of available SCOP families. List of Scop domains:. Best resolution complexes of SCOP family representatives, bound with nucleic acid. List of SCOP families detected in NPIDB entries:. A DNA-binding domain in eukaryotic transcription factors. A DNA-binding domain in eukaryotic transcription factors. A DNA-binding domain in eukaryotic transcription factors. An anticodon-binding domain of class I aminoacyl-tRNA synthetases. An anticodon-binding domain of class I aminoacyl-tRNA synthetases. Restriction ...

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genebee.msu.su

Bioinformatics portal, Moscow State University

http://www.genebee.msu.su/bioinformatics.html

Bioinformatics Portal of A.N.Belozersky Institute,. Supported by the Russian Foundation for Basic Research, grant 13-07-00969-a. Original Services of GeneBee Group. AliBee – Multiple alignment Release 3.0. AliGraf – Graphical Alignment. AliComp – Alignments Comparison. Screening by similarity Release 3.0. TreeTop – phylogenetic reconstruction. DotHelix – construction of local similarity map for two sequences. RNA secondary structure prediction. Pipeline Screening: Keyword → Similarity.

genebee.msu.ru

Bioinformatics portal, Moscow State University

http://www.genebee.msu.ru/bioinformatics.html

Bioinformatics Portal of A.N.Belozersky Institute,. Supported by the Russian Foundation for Basic Research, grant 13-07-00969-a. Original Services of GeneBee Group. AliBee – Multiple alignment Release 3.0. AliGraf – Graphical Alignment. AliComp – Alignments Comparison. Screening by similarity Release 3.0. TreeTop – phylogenetic reconstruction. DotHelix – construction of local similarity map for two sequences. RNA secondary structure prediction. Pipeline Screening: Keyword → Similarity.

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npidb.belozersky.msu.ru

NPIDB: Home

Database of structures of nucleic acid - protein complexes. Information on SCOP and Pfam domains detected in protein chains is presented. Kirsanov et al. NPIDB: nucleic acidprotein interaction database. Nucleic Acid Research, Volume 41 Issue D1 D517-D523 (January 2013). Structures of protein-nucleic acid complexes. Are extracted from Protein Data Bank. PDB) as files in the PDB format. As of 24.10.2017. The detection of Pfam domains. Are available for download or viewing with Jmol. List of SCOP domains.

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