MAMMOTH-mult specifications

Information


Unique identifier OMICS_03643
Name MAMMOTH-mult
Interface Web user interface
Restrictions to use None
Computer skills Basic
Stability Stable
Maintained Yes

Publication for MAMMOTH-mult

MAMMOTH-mult in publications

 (11)
PMCID: 5353683
PMID: 28300139
DOI: 10.1038/srep44504

[…] to do direct comparisons between the two ensembles, we have generated a structural alignment of the annotated representative models (model 1 in each case) of the 2jzv, 2lj4 and 2rqs structures with mammoth-mult. using this alignment we have prepared a consensus mapping of the residues and used this to generate pdb files containing only the residues aligned by mammoth-mult and have used […]

PMCID: 4912094
PMID: 27314675
DOI: 10.1371/journal.pone.0157553

[…] was repeated for soluble helices and 1258 soluble helix families (solfams) were identified. for each helix family, a multiple structural alignment of the full protein chains was generated using mammoth-mult []., the gpcrdb provides a structure-based alignment of each of the helices of gpcrs []. the sequences in gpcrdb are the native sequences, but some gpcr structures contain mutations. […]

PMCID: 4034400
PMID: 24895579
DOI: 10.1155/2014/470482

[…] to the corresponding swissprot entries []. for structure prediction, the i-tasser and phyre2 servers were used [, ]. pairwise and multiple structural alignments were done with dalilite and mammoth-mult, respectively [, ]. the anchor and iupred servers were used to predict unstructured regions and potential binding sites within these regions in fly atg1, atg13, and atg101 [, ]. […]

PMCID: 3338010
PMID: 22399676
DOI: 10.1093/bioinformatics/bts103

[…] at least 2å resolution) and excluding nmr structures and those with missing residues., all-versus-all pairwise structural alignments were generated using seven methods: sap (), dalilite (), mammoth-mult (), fatcat (), ce (), tm-align () and fr-tm-align (). fatcat alignments were run both in flexible and non-flexible mode to permit a direct comparison, leading to eight methods in total. […]

PMCID: 2806952
PMID: 19835885
DOI: 10.1016/j.jmb.2009.10.010

[…] each experimentally determined ccp structure within the complement system against the closest-to-mean individual structures of ccps 12 and 13. structural superimpositions were performed using mammoth-mult then depicted using rasmol v2.7.3., measurements of backbone 15n t1 and t2 and 1h,15n noes were conducted at 600 mhz using 0.6 mm samples in 20 mm potassium phosphate buffer (ph 6.6). […]


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MAMMOTH-mult institution(s)
Department of Physiology and Biophysics, Mount Sinai School of Medicine, New York, NY, USA

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