ConSurf protocols

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chevron_left Phylogenetic inference Multiple amino acid sequence alignment Sequence homology search Structure conservation prediction chevron_right
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Associated diseases

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ConSurf specifications

Information


Unique identifier OMICS_06939
Name ConSurf
Interface Web user interface
Restrictions to use None
Computer skills Basic
Stability Stable
Maintained Yes

Maintainer


  • person_outline QuasiMotiFinder <>

Publications for ConSurf

ConSurf in pipelines

 (32)
2018
PMCID: 5784728
PMID: 29416568
DOI: 10.1186/s13100-018-0111-x

[…] pdb files were uploaded to pro-origami software (http://munk.csse.unimelb.edu.au/pro-origami/) []. for conservation, a single full-length extein sequence was chosen as a query and uploaded to consurf []. an automatic multiple sequence alignment was performed using mafft and homologs were collected from uniref90 using a maximum percent identity of 95 and a minimum percent identity of 60. […]

2018
PMCID: 5887907
PMID: 29567797
DOI: 10.15252/emmm.201708483

[…] calculated with the program modeller (sánchez & sali, ). conservation analysis was then performed based on our 3d model of alpi using the fully automated evolutionary approach as implemented on consurf server (ashkenazy et al, ). finally, visualization, analysis and figure preparation of the 3d model were performed using pymol software (delano, w.l. the pymol molecular graphics system […]

2018
PMCID: 5931518
PMID: 29717126
DOI: 10.1038/s41467-018-04145-4

[…] image of representative density is shown in supplementary fig. . surface conservation in the lsm2–8 ring depicted in supplementary fig.  was generated with the alignment in supplementary note  and consurf., the small 5′-fam labeled rna used for fluorescence polarization (s. cerevisiae u6 nucleotides 104–113) was purchased from integrated dna technologies and purified by urea page and ion […]

2017
PMCID: 5503940
PMID: 28694425
DOI: 10.1038/s41467-017-00091-9

[…] subunits (the curvature angle) was calculated by superimposing the secondary structural elements of their nucleotide-binding domain. the sequence conservation of kinesin-13s was calculated using the consurf program. figures of structural models were generated with pymol (www.pymol.org)., the atpase activities of kif2c-(sn+m) mutants and of kif2c-darpin were measured at 25 °c using […]

2017
PMCID: 5529537
PMID: 28747718
DOI: 10.1038/s41598-017-06575-4

[…] . in current study, we have predicted the conserved amino acid residues in the il-8 protein based on the sequence and position-specific evolutionary information using clustal omega and consurf. structural phylogenetic analysis using consurf revealed that the functional residues are highly conserved in human il-8; and most of the disease associated nssnps are within these conserved […]


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ConSurf in publications

 (524)
PMCID: 5931518
PMID: 29717126
DOI: 10.1038/s41467-018-04145-4

[…] image of representative density is shown in supplementary fig. . surface conservation in the lsm2–8 ring depicted in supplementary fig.  was generated with the alignment in supplementary note  and consurf., the small 5′-fam labeled rna used for fluorescence polarization (s. cerevisiae u6 nucleotides 104–113) was purchased from integrated dna technologies and purified by urea page and ion […]

PMCID: 5934427
PMID: 29755507
DOI: 10.3389/fgene.2018.00146

[…] docking energy scores., the il10ra protein sequence was searched for homologous sequences using psi-blast. then the position-specific conservation scores of amino acid variants were determined using consurf web server, which calculates the evolutionary conservation of amino acid positions in proteins by means of an ml algorithms empirical or bayesian inference (ashkenazy et al., ). […]

PMCID: 5933820
PMID: 29684093
DOI: 10.1371/journal.ppat.1006998

[…] pymol molecular graphics system (delano scientific, http://www.pymol.org/), quantitative electrostatics were calculated using pdb2pqr [, ] and apbs [], and conservation levels were generated with consurf []. programs used for crystallographic data processing and analysis were accessed through sbgrid []., we would like to thank patrick yip for technical assistance, tony romeo for the ppga372 […]

PMCID: 5908797
PMID: 29674686
DOI: 10.1038/s41467-018-03920-7

[…] well as structure analysis was performed using swisspdbviewer and swissmodel. evolutionary sequence conservation among the various subgroups of the nhl domain-containing proteins were analyzed using consurf and were mapped on the nhl domain structure of drlin41 (fig. , right panel, second column) and dmbrat (fig. , right panel, third column)., atomic coordinates and structure factors […]

PMCID: 5895031
PMID: 29641545
DOI: 10.1371/journal.pone.0195627

[…] on protein structure and stability (, ). out of 52 nssnps analysed, 21 were predicted to be deleterious (, ) by consensus of all eight algorithms used. the evolutionary conservation prediction tool consurf revealed that 11 out of 21 of the predicted deleterious mutations occur in highly conserved regions of the gene (, ). interestingly, 9 out of these 11 mutations are located in two adjacent, […]


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ConSurf institution(s)
Department of Cell Research and Immunology, George S Wise Faculty of Life Sciences, Tel Aviv University, Ramat Aviv, Israel

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