kbdock.loria.fr
KBDOCK Server Home Pageprotein-protein interactions, knowledge discovery in databases, protein docking, protein-protein docking
http://kbdock.loria.fr/
protein-protein interactions, knowledge discovery in databases, protein docking, protein-protein docking
http://kbdock.loria.fr/
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KBDOCK Server Home Page | kbdock.loria.fr Reviews
https://kbdock.loria.fr
protein-protein interactions, knowledge discovery in databases, protein docking, protein-protein docking
kbdock.loria.fr
KBDOCK Server Network Page
http://kbdock.loria.fr/network.php
A resource for knowledge-based protein docking. View network of DDIs for a given Pfam family.
KBDOCK Server Browse Page
http://kbdock.loria.fr/browse.php
A resource for knowledge-based protein docking. Domain Interactions with Unannotated Peptides. Short peptides (≤25 AAs). Long peptides ( 25 AAs).
KBDOCK Server Dowload Page
http://kbdock.loria.fr/download.php
A resource for knowledge-based protein docking. Kbdock.pdb chain res. Kbdock.pdb pfam dom. Kbdock.dom res cons. Kbdock.intact res pair. Family superpositions (representative interactions only). A DDI is an interaction between two Pfam domains. A DPI is an interaction between a Pfam domain and a Pfam peptide. A DSPI is an interaction between a Pfam domain and an unannotated structure of length 2 and ≤25. A DLPI is an interaction between a Pfam domain and an unannotated structure of length 25.
KBDOCK Server Statistics Page
http://kbdock.loria.fr/statistics.php
A resource for knowledge-based protein docking. KBDOCK was built from the June 4th 2013 snapshot which contains 91,190. PDB entries of which 88,290. The Pfam version used is Pfam 27.0 March 2013 which contains 14,831. Pfam entries of which:. Pfam families, domains and repeats will be refered to as Pfam domains. Pfam motifs will be refered to as Pfam peptides. The total number of PDB chains is 231,405. Have only Pfam domains. Have only Pfam motifs. Have both Pfam domains and Pfam motifs. Chains from 84,738.
KBDOCK Server Help Page
http://kbdock.loria.fr/help.php
A resource for knowledge-based protein docking. How to find DDIs and analyse binding sites for a Pfam family of interest. Go to the Search page. And click on 'Find interactions for a given Pfam family'. You would need one. The search is against the Pfam description attribute. Your sequence should not contain the fasta header. A PDB code (e.g. 1avw. Or a PDB file upload. To include DDIs between different but structurally similar Pfam families, include "structural neighbour interactions" in your search.
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KBDOCK Server Home Page
A resource for knowledge-based protein docking. KBDOCK is a 3D database system that defines and spatially clusters protein binding sites for knowledge-based protein docking. KBDOCK combines the PFAM. Domain classification with coordinate data from the PDB. To analyse the spatial arrangements of domain-domain interactions (DDIs) and domain-peptide interactions (DPIs) by Pfam family, and to propose structural templates for protein docking. [ More. Go to the Search page. 15745 visits since March 21, 2011.
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