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Results: 1 to 20 of 307

1.

Versatile annotation and publication quality visualization of protein complexes using POLYVIEW-3D.

Porollo A, Meller J.

BMC Bioinformatics. 2007 Aug 29;8:316.

PMID:
17727718
[PubMed - indexed for MEDLINE]
Free PMC Article
2.

POLYVIEW: a flexible visualization tool for structural and functional annotations of proteins.

Porollo AA, Adamczak R, Meller J.

Bioinformatics. 2004 Oct 12;20(15):2460-2. Epub 2004 Apr 8.

PMID:
15073023
[PubMed - indexed for MEDLINE]
Free Article
3.

POLYVIEW-MM: web-based platform for animation and analysis of molecular simulations.

Porollo A, Meller J.

Nucleic Acids Res. 2010 Jul;38(Web Server issue):W662-6. doi: 10.1093/nar/gkq445. Epub 2010 May 26.

PMID:
20504857
[PubMed - indexed for MEDLINE]
Free PMC Article
4.

PROVAT: a tool for Voronoi tessellation analysis of protein structures and complexes.

Gore SP, Burke DF, Blundell TL.

Bioinformatics. 2005 Aug 1;21(15):3316-7. Epub 2005 Jun 2.

PMID:
15932902
[PubMed - indexed for MEDLINE]
Free Article
5.

SCOWLP: a web-based database for detailed characterization and visualization of protein interfaces.

Teyra J, Doms A, Schroeder M, Pisabarro MT.

BMC Bioinformatics. 2006 Mar 2;7:104.

PMID:
16512892
[PubMed - indexed for MEDLINE]
Free PMC Article
6.

KFC Server: interactive forecasting of protein interaction hot spots.

Darnell SJ, LeGault L, Mitchell JC.

Nucleic Acids Res. 2008 Jul 1;36(Web Server issue):W265-9. doi: 10.1093/nar/gkn346. Epub 2008 Jun 6.

PMID:
18539611
[PubMed - indexed for MEDLINE]
Free PMC Article
7.

HotPoint: hot spot prediction server for protein interfaces.

Tuncbag N, Keskin O, Gursoy A.

Nucleic Acids Res. 2010 Jul;38(Web Server issue):W402-6. doi: 10.1093/nar/gkq323. Epub 2010 May 5.

PMID:
20444871
[PubMed - indexed for MEDLINE]
Free PMC Article
8.

Large-scale structural modeling of protein complexes at low resolution.

Zhu Z, Tovchigrechko A, Baronova T, Gao Y, Douguet D, O'Toole N, Vakser IA.

J Bioinform Comput Biol. 2008 Aug;6(4):789-810.

PMID:
18763743
[PubMed - indexed for MEDLINE]
9.

Efficient recognition of folds in protein 3D structures by the improved PRIDE algorithm.

Gáspári Z, Vlahovicek K, Pongor S.

Bioinformatics. 2005 Aug 1;21(15):3322-3. Epub 2005 May 24.

PMID:
15914542
[PubMed - indexed for MEDLINE]
Free Article
10.

Visualization of unfavorable interactions in protein folds.

Weichenberger CX, Byzia P, Sippl MJ.

Bioinformatics. 2008 May 1;24(9):1206-7. doi: 10.1093/bioinformatics/btn108. Epub 2008 Mar 29.

PMID:
18375963
[PubMed - indexed for MEDLINE]
Free Article
11.

3D-partner: a web server to infer interacting partners and binding models.

Chen YC, Lo YS, Hsu WC, Yang JM.

Nucleic Acids Res. 2007 Jul;35(Web Server issue):W561-7. Epub 2007 May 21.

PMID:
17517763
[PubMed - indexed for MEDLINE]
Free PMC Article
12.

3D complex: a structural classification of protein complexes.

Levy ED, Pereira-Leal JB, Chothia C, Teichmann SA.

PLoS Comput Biol. 2006 Nov 17;2(11):e155. Epub 2006 Oct 5.

PMID:
17112313
[PubMed - indexed for MEDLINE]
Free PMC Article
13.

ProSAT2--Protein Structure Annotation Server.

Gabdoulline RR, Ulbrich S, Richter S, Wade RC.

Nucleic Acids Res. 2006 Jul 1;34(Web Server issue):W79-83.

PMID:
16845114
[PubMed - indexed for MEDLINE]
Free PMC Article
14.

WebFEATURE: An interactive web tool for identifying and visualizing functional sites on macromolecular structures.

Liang MP, Banatao DR, Klein TE, Brutlag DL, Altman RB.

Nucleic Acids Res. 2003 Jul 1;31(13):3324-7.

PMID:
12824318
[PubMed - indexed for MEDLINE]
Free PMC Article
15.

BisoGenet: a new tool for gene network building, visualization and analysis.

Martin A, Ochagavia ME, Rabasa LC, Miranda J, Fernandez-de-Cossio J, Bringas R.

BMC Bioinformatics. 2010 Feb 17;11:91. doi: 10.1186/1471-2105-11-91.

PMID:
20163717
[PubMed - indexed for MEDLINE]
Free PMC Article
16.

FireDock: a web server for fast interaction refinement in molecular docking.

Mashiach E, Schneidman-Duhovny D, Andrusier N, Nussinov R, Wolfson HJ.

Nucleic Acids Res. 2008 Jul 1;36(Web Server issue):W229-32. doi: 10.1093/nar/gkn186. Epub 2008 Apr 19.

PMID:
18424796
[PubMed - indexed for MEDLINE]
Free PMC Article
17.

PyETV: a PyMOL evolutionary trace viewer to analyze functional site predictions in protein complexes.

Lua RC, Lichtarge O.

Bioinformatics. 2010 Dec 1;26(23):2981-2. doi: 10.1093/bioinformatics/btq566. Epub 2010 Oct 6.

PMID:
20929911
[PubMed - indexed for MEDLINE]
Free PMC Article
18.

MSDmotif: exploring protein sites and motifs.

Golovin A, Henrick K.

BMC Bioinformatics. 2008 Jul 17;9:312. doi: 10.1186/1471-2105-9-312.

PMID:
18637174
[PubMed - indexed for MEDLINE]
Free PMC Article
19.

PRICE (PRotein Interface Conservation and Energetics): a server for the analysis of protein-protein interfaces.

Guharoy M, Pal A, Dasgupta M, Chakrabarti P.

J Struct Funct Genomics. 2011 Mar;12(1):33-41. doi: 10.1007/s10969-011-9108-0. Epub 2011 Apr 26.

PMID:
21519818
[PubMed - indexed for MEDLINE]
20.

PRISM: a web server and repository for prediction of protein-protein interactions and modeling their 3D complexes.

Baspinar A, Cukuroglu E, Nussinov R, Keskin O, Gursoy A.

Nucleic Acids Res. 2014 Jul;42(Web Server issue):W285-9. doi: 10.1093/nar/gku397. Epub 2014 May 14.

PMID:
24829450
[PubMed - indexed for MEDLINE]
Free PMC Article

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