I-Mutant protocols

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I-Mutant statistics

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I-Mutant specifications

Information


Unique identifier OMICS_07143
Name I-Mutant
Interface Web user interface
Restrictions to use None
Computer skills Basic
Version 3.0
Stability Stable
Maintained Yes

Publications for I-Mutant

I-Mutant in pipelines

 (7)
2017
PMCID: 5374532
PMID: 28361909
DOI: 10.1038/srep45535

[…] analyses involved the software programs pymol (the pymol molecular graphics system, version 1.8 schrödinger, llc) and coot. in most cases, to predict the stability of a mutated structure was used i-mutant 2.0. software., enzymatic activity was measured using p-nitrophenyl-β-d-galactopyranoside (β-pnpg). cellular protein extracts or purified protein preparations were diluted in 150 μl z buffer […]

2016
PMCID: 4785247
PMID: 27019850
DOI: 10.1155/2016/7562368

[…] rohita). the dataset of possible nssnps was selected based upon previously reported observations in the mammalian system. in this study, we have used both sequence-based (sift, panther, provean, and i-mutant) and structure-based (i-tasser) algorithms. we have generated mutations by p.d76a, p.q204p, p.c312y, and p.d313a amino acid (aa) substitutions in the rohu mstn protein using the pymol tool […]

2016
PMCID: 4795779
PMID: 26987071
DOI: 10.1371/journal.pone.0151806

[…] using physical and comparative considerations. a mutation is qualitatively appraised, as benign, possibly damaging, or probably damaging based on pairs of false positive rate (fpr) thresholds. i-mutant 3.0 predicts the thermostability changes created by a single point mutation on a native protein sequence. values of < -0.5 predict decreased protein stability with the potential […]

2015
PMCID: 4539073
PMID: 26288759
DOI: 10.1016/j.mgene.2015.07.007

[…] the ability to analyze and compare human non-synonymous snps in protein structures, protein complexes, protein–protein interfaces and metabolic networks ()., a support vector machine based tool i mutant 2.0 (http://folding.biofold.org/i-mutant/i-mutant2.0.html) was used to predict the change in the stability of the protein upon mutation. this tool automatically predicts protein stability […]

2015
PMCID: 4583633
PMID: 26484229
DOI: 10.1016/j.gdata.2015.05.015

[…] nssnps, 8 (36.36%) were found to be deleterious, having a tolerance index score of ≤− 2.5 using provean tool ()., to add another layer of confirmation, we also analyzed effect of these nssnps using i-mutant 2.0. it gave result in the form of effect of mutants on stability of protein with reliability index at ph 7.0 and temperature 25 °c. here in our case, in slc11a2, all 22 non-synonymous snps […]


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I-Mutant in publications

 (72)
PMCID: 5948820
PMID: 29751744
DOI: 10.1186/s12881-018-0593-x

[…] native and mutant structure, indicating changes in the loop regions of the superimposed structure. a decrease instability was predicted by istable with a confidence score of 0.605. furthermore, i-mutant predicted a large decrease in protein stability due to the variant p.ser410thr with δδg value of − 1.37 kcal/mol (fig. ).fig. 3, the protein sequence of homo sapiens (np_064608) was aligned […]

PMCID: 5903617
PMID: 29664915
DOI: 10.1371/journal.pone.0195971

[…] for structure predictions of pitx2, sequence in fasta format was obtained from ncbi database (np_001191327.1)., eight different protein stability programs (duet, sdm, mcsm i-mutant3.0, mupro, iptree-stab, cupsat, and istable) were used to predict the effects of missense mutations on the stability of pitx2 protein. duet is a web server that uses integrated computational […]

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

[…] and structure, all synonymous and non-synonymous snps were selected for subsequent analysis., computational methods such as provean, sift, polyphen2, phd-snp, snap2, snps&go, fathmm and i-mutant 3 were used to investigate the effect of mutations in the tspo gene on protein structure and stability (, ). out of 52 nssnps analysed, 21 were predicted to be deleterious (, ) by consensus […]

PMCID: 5838957
PMID: 29510741
DOI: 10.1186/s13395-018-0155-0

[…] surface areas were calculated using g23d, which applies voronoi tessellation to allocate contact surfaces between neighboring atoms [, ]. stability analysis of the e317g variant was performed using i-mutant-2 [], directly accessed from g23d., formalin-fixed or fresh skeletal muscle biopsy specimens were obtained by referring veterinarians and shipped on gel packs to the neuromuscular diagnostic […]

PMCID: 5800017
PMID: 29402222
DOI: 10.1186/s12864-018-4498-z

[…] nal file : figure s5), and visualized this with integrative genomics viewer (igv), version 2.3.32 []., we used two algorithms to predict the effect of the mutations on protein structure and function. i-mutant version 2.0, which predicts the protein stability change upon single site mutation (http://folding.biofold.org/i-mutant/i-mutant2.0.html) [] and polyphen-2, which predicts the possible impact […]


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