POLYVIEW-3D protocols

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POLYVIEW-3D specifications

Information


Unique identifier OMICS_05073
Name POLYVIEW-3D
Interface Web user interface
Restrictions to use None
Computer skills Basic
Stability Stable
Maintained Yes

Maintainer


  • person_outline Aleksey Porollo <>

Publication for POLYVIEW-3D

POLYVIEW-3D in pipeline

2014
PMCID: 4214414
PMID: 25307848
DOI: 10.1038/ncomms6191

[…] of sema4a containing the sema and psi domains only (amino acids 55 to 527 in np_001180229.1 reference sequence) were generated using the intensive model algorithm of phyre2 (ref. ) and drawn by polyview-3d ( http://polyview.cchmc.org/polyview3d.html)., results obtained from experiments with isogenic cell lines were compared in excel 2013 using a paired, two-tailed student's t-test., e.s. […]


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POLYVIEW-3D in publications

 (11)
PMCID: 5665920
PMID: 29093559
DOI: 10.1038/s41598-017-14933-5

[…] to check and validate protein structures. 97.95% of the residues were found to be in the most favored and allowed regions of the ramachandran plot. molecular graphic images were obtained using the polyview-3d webserver (http://polyview.cchmc.org/polyview3d.html)., total rna was isolated from tissues with the purelink rna mini kit protocol for animal tissues (thermo fisher scientific) […]

PMCID: 4473683
PMID: 26091504
DOI: 10.1038/srep11434

[…] cells determined on both cell lines (mdck-siat1/qt6) using wildtype and mutant prp, respectively., the structural model of the h5 ha molecule of kan-1 was constructed using swiss-model and polyview-3d and is based on homology modeling using the crystal structure of the h5-ha protein of a/vietnam/1203/2004 (pdb id: 2fk0.1) as a template. h5 numbering was based on the mature protein […]

PMCID: 3909977
PMID: 24523732
DOI: 10.1155/2014/871676

[…] 60–525 of llo were used to predict a three-dimensional model since these residues correspond to amino acids 32–242 and 245–499 in sly. molecular models were prepared in different orientations using polyview 3d (http://polyview.cchmc.org/polyview3d.html) []., linear b-cell epitopes were chosen with three different algorithms. abcpred uses a recurrent neural network to predict b-cell epitopes […]

PMCID: 3848420
PMID: 24044430
DOI: 10.1186/1471-2105-14-275

[…] and molecular visualizations of the structural models were performed using the sybyl program package run on silicon graphics fuel workstations (silicon graphics international, fremont, ca, usa). polyview-3d (available at: http://polyview.cchmc.org/polyview3d.html) was used to prepare surface representation []., previously published phylogenetic analyses were used to identify the most closely […]

PMCID: 3572963
PMID: 23457545
DOI: 10.1371/journal.pone.0056305

[…] with swiss-model , based on the crystal structure of the catalytic domain of s. mutans gtf-si from strain mt8148 (protein databank accession code 3aie; ). the resulting structures were viewed with polyview-3d ., types i and ii functional divergence between s. mutans gtfb and gtfc were estimated with diverge2 , based on an alignment of gtf sequences from human, chimpanzee and macaque isolates […]


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POLYVIEW-3D institution(s)
Department of Environmental Health, University of Cincinnati, Cincinnati, OH, USA

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