MultiBind specifications

Information


Unique identifier OMICS_23985
Name MultiBind
Alternative name Multiple Alignment of Protein Binding Sites
Software type Application/Script
Interface Web user interface
Restrictions to use None
Input data A PDB code or a file with complexes' structures.
Input format PDB, ZIP
Output data A set of physico-chemical properties.
Computer skills Basic
Stability Stable
Maintained Yes

Maintainer


  • person_outline Haim Wolfson <>

Information


Unique identifier OMICS_23985
Name MultiBind
Alternative name Multiple Alignment of Protein Binding Sites
Software type Application/Script
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux
Computer skills Advanced
Stability Stable
Maintained Yes

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Maintainer


  • person_outline Haim Wolfson <>

Publications for Multiple Alignment of Protein Binding Sites

MultiBind in publications

 (11)
PMCID: 5225006
PMID: 28002427
DOI: 10.1371/journal.pcbi.1005293

[…] of ligand binding sites have also been constructed and may be used to infer unknown ligand binding sites based on homology and other attributes such as pocketome [], funfold [], scpdb [], ibis [], multibind [], fpop [], and findsite []. to date however, no comprehensive study comparing geometry based techniques has been performed., normal-mode analysis is one of the standard techniques […]

PMCID: 4594084
PMID: 26457119
DOI: 10.1186/s13321-015-0096-0

[…] exhibited different folds but had known similar binding sites and performed a similar function. probis was compared to three different structural alignment algorithms; dalilite [], molloc [] and multibind []. the comparison between the methods was made by calculating the rmsd between previously identified, similar binding site residues, after the proteins in the pair have been superimposed. […]

PMCID: 4416244
PMID: 25886468
DOI: 10.1186/s13104-015-1101-4

[…] inhibitors for enhancing therapeutic efficacy and/or overcoming side effects., aa binding sites in coxs and loxs are identified and compared by the development of receptor based pharmacophore using multibind. physico chemical properties were compared to understand the details of the binding sites in all the enzymes and to elucidate important amino acids that can be targeted for drug design. […]

PMCID: 3521469
PMID: 23281852
DOI: 10.1186/1471-2164-13-S7-S21

[…] protein structures have been proposed to analyze the structural motifs and to describe the binding environment [,]. most of these studies (e.g. spasm [], superimpose [], rasmot-3d pro [], multibind [], and wu et al. []) search the similar local structures or binding sites (active sites) based on only one structural motif. however, a protein-ligand binding interface usually consists […]

PMCID: 3398928
PMID: 22815760
DOI: 10.1371/journal.pone.0040540

[…] structure templates based on constrained logic programming. cavbase and ef-site used clique-based method , to match structure templates formed by surface patches. siteengine , , sitesbase , , multibind and tess applied geometric hashing algorithms , , , , , to match protein surfaces and binding sites. in a study by weskamp et al. , clique detection and geometric hashing are combined. […]


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MultiBind institution(s)
School of Computer Science, Raymond and Beverly Sackler Faculty of Exact Sciences, Tel Aviv University, Tel Aviv, Israel; Physical Biosciences Division, Berkeley National Lab, CA, USA; Sackler Inst. of Molecular Medicine, Sackler Faculty of Medicine, Tel Aviv University, Tel Aviv, Israel; Basic Research Program, SAIC-Frederick, Inc., Laboratory of Experimental and Computational Biology, NCI-Frederick, Frederick, MD, USA
MultiBind funding source(s)
Supported by the Clore PhD Fellowship, the Israel Science Foundation (grant no. 281/05), the NIAID, NIH (grant No. 1UC1AI067231), the Binational US-Israel Science Foundation (BSF) and the Hermann Minkowski-Minerva Center for Geometry.

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