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ConSurf-DB specifications

Information


Unique identifier OMICS_06941
Name ConSurf-DB
Restrictions to use None
Community driven No
Data access Browse
User data submission Not allowed
Maintained Yes

Maintainer


  • person_outline QuasiMotiFinder

Publication for ConSurf-DB

ConSurf-DB citations

 (9)
library_books

Conformational plasticity and evolutionary analysis of the myotilin tandem Ig domains

2017
Sci Rep
PMCID: 5479843
PMID: 28638118
DOI: 10.1038/s41598-017-03323-6

[…] ores for each myotilin residue in the multiple sequence alignment (MSA) were calculated using the Scorecons server. Disorder tendency prediction was performed using the GeneSilico MetaDisorder server.ConSurf-DB was used for presentation of evolutionary conservation profiles of myotilin Ig domains. Pre-calculated MSA for Ig1 consisted of 301 homologues and 152 homologues for Ig2. Calculated conserv […]

library_books

A dynamic hydrophobic core orchestrates allostery in protein kinases

2017
Sci Adv
PMCID: 5384802
PMID: 28435869
DOI: 10.1126/sciadv.1600663

[…] The sequence conservation was plotted onto the protein structure using ConSurf-DB (, ). Initially, a CS-BLAST () search against the SWISS-PROT database was performed to obtain at least 50 unique hits. The list of collected homologs was subsequently filtered by coverage ( […]

library_books

Novel mitochondrial mutations in the ATP6 and ATP8 genes in patients with breast cancer

2014
PMCID: 4148381
PMID: 25110199
DOI: 10.3892/mmr.2014.2471

[…] ). The grand average of hydropathy (GRAVY) value () and the theoretical isoelectric point (pI) were calculated using the software program tool ProtParam (). Conservation data were downloaded from the ConSurf-DB (). The ConSurf-DB is a database that contains precomputed conservation scores for all structures in the Protein Data Bank (PDB). The ConSurf server () was used to identify functional regio […]

library_books

Knowledge based Fragment Binding Prediction

2014
PLoS Comput Biol
PMCID: 3998881
PMID: 24762971
DOI: 10.1371/journal.pcbi.1003589

[…] of pocket refinement algorithms like SURFNET-ConSurf could improve pocket definition and thereby focus and improve fragment binding prediction. It uses evolutionary conservation information from the ConSurf-DB to trim predicted pockets to regions proximal to conserved residues. Given that pockets with conserved residues likely have conserved structure, such pockets might be easier tests cases fo […]

library_books

Identification and analysis of conserved pockets on protein surfaces

2013
BMC Bioinformatics
PMCID: 3633052
PMID: 23815589
DOI: 10.1186/1471-2105-14-S7-S9

[…] hains are found in the crystallographic asymmetric unit. Using these criteria we collected 460 monomers and 165 homodimers.We downloaded all the unique sequences associated to each PDB structure from Consurf-DB []http://consurf.tau.ac.il/.To test the effect of redundancy, we run skipredundant [] to obtain the cluster of sequences that have less than 70% identity pair wise. […]

library_books

Predicting where Small Molecules Bind at Protein Protein Interfaces

2013
PLoS One
PMCID: 3591369
PMID: 23505538
DOI: 10.1371/journal.pone.0058583

[…] uence features of the interfaces that reflect the role of individual residues in the complex (all in all 5815 residues). (1) The evolutionary conservation score for a single residue was obtained from Consurf-DB that provides pre-calculated normalized conservation scores for all PDB structures . These scores are based on multiple sequence alignments using PSI-BLAST and MUSCLE, respectively, and on […]

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ConSurf-DB institution(s)
Department of Biochemistry, George S Wise Faculty of Life Sciences, Tel Aviv University, Israel
ConSurf-DB funding source(s)
This work was supported by the German Federal Ministry of Education and Research (BMBF) within the framework of German-Israeli Project Cooperation (DIP) (grant number K5.1).

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