PubMed

Conformation dependence of backbone geometry in proteins.

Berkholz DS, Shapovalov MV, Dunbrack RL Jr, Karplus PA.

Structure. 2009 Oct 14;17(10):1316-25.PMID: 19836332 [PubMed - in process]Related articles

Improved prediction of protein side-chain conformations with SCWRL4.

Krivov GG, Shapovalov MV, Dunbrack RL Jr.

Proteins. 2009 Dec;77(4):778-95.PMID: 19603484 [PubMed - in process]Related articles

Outcome of a workshop on applications of protein models in biomedical research.

Schwede T, Sali A, Honig B, Levitt M, Berman HM, Jones D, Brenner SE, Burley SK, Das R, Dokholyan NV, Dunbrack RL Jr, Fidelis K, Fiser A, Godzik A, Huang YJ, Humblet C, Jacobson MP, Joachimiak A, Krystek SR Jr, Kortemme T, Kryshtafovych A, Montelione GT, Moult J, Murray D, Sanchez R, Sosnick TR, Standley DM, Stouch T, Vajda S, Vasquez M, Westbrook JD, Wilson IA.

Structure. 2009 Feb 13;17(2):151-9.PMID: 19217386 [PubMed - indexed for MEDLINE]Related articlesFree article

An unusually small dimer interface is observed in all available crystal structures of cytosolic sulfotransferases.

Weitzner B, Meehan T, Xu Q, Dunbrack RL Jr.

Proteins. 2009 May 1;75(2):289-95.PMID: 19173308 [PubMed - indexed for MEDLINE]Related articlesFree article

SCWRL and MolIDE: computer programs for side-chain conformation prediction and homology modeling.

Wang Q, Canutescu AA, Dunbrack RL Jr.

Nat Protoc. 2008;3(12):1832-47.PMID: 18989261 [PubMed - indexed for MEDLINE]Related articlesFree article

Statistical analysis of interface similarity in crystals of homologous proteins.

Xu Q, Canutescu AA, Wang G, Shapovalov M, Obradovic Z, Dunbrack RL Jr.

J Mol Biol. 2008 Aug 29;381(2):487-507. Epub 2008 Jun 7.PMID: 18599072 [PubMed - indexed for MEDLINE]Related articlesFree article

Oligomerization of BAK by p53 utilizes conserved residues of the p53 DNA binding domain.

Pietsch EC, Perchiniak E, Canutescu AA, Wang G, Dunbrack RL, Murphy ME.

J Biol Chem. 2008 Jul 25;283(30):21294-304. Epub 2008 Jun 4.PMID: 18524770 [PubMed - indexed for MEDLINE]Related articlesFree article

A forward-looking suggestion for resolving the stereochemical restraints debate: ideal geometry functions.

Karplus PA, Shapovalov MV, Dunbrack RL Jr, Berkholz DS.

Acta Crystallogr D Biol Crystallogr. 2008 Mar;64(Pt 3):335-6. Epub 2008 Feb 20. No abstract available. PMID: 18323629 [PubMed - indexed for MEDLINE]Related articles

BioDownloader: bioinformatics downloads and updates in a few clicks.

Shapovalov MV, Canutescu AA, Dunbrack RL Jr.

Bioinformatics. 2007 Jun 1;23(11):1437-9. Epub 2007 May 5.PMID: 17483505 [PubMed - indexed for MEDLINE]Related articlesFree article

Statistical and conformational analysis of the electron density of protein side chains.

Shapovalov MV, Dunbrack RL Jr.

Proteins. 2007 Feb 1;66(2):279-303.PMID: 17080462 [PubMed - indexed for MEDLINE]Related articles

ProtBuD: a database of biological unit structures of protein families and superfamilies.

Xu Q, Canutescu A, Obradovic Z, Dunbrack RL Jr.

Bioinformatics. 2006 Dec 1;22(23):2876-82. Epub 2006 Oct 2. Erratum in: Bioinformatics. 2007 Aug;23(15):2028. PMID: 17018535 [PubMed - indexed for MEDLINE]Related articlesFree article

Outcome of a workshop on archiving structural models of biological macromolecules.

Berman HM, Burley SK, Chiu W, Sali A, Adzhubei A, Bourne PE, Bryant SH, Dunbrack RL Jr, Fidelis K, Frank J, Godzik A, Henrick K, Joachimiak A, Heymann B, Jones D, Markley JL, Moult J, Montelione GT, Orengo C, Rossmann MG, Rost B, Saibil H, Schwede T, Standley DM, Westbrook JD.

Structure. 2006 Aug;14(8):1211-7. No abstract available. PMID: 16955948 [PubMed - indexed for MEDLINE]Related articles

Sequence comparison and protein structure prediction.

Dunbrack RL Jr.

Curr Opin Struct Biol. 2006 Jun;16(3):374-84. Epub 2006 May 19. Review.PMID: 16713709 [PubMed - indexed for MEDLINE]Related articles

Assessment of disorder predictions in CASP6.

Jin Y, Dunbrack RL Jr.

Proteins. 2005;61 Suppl 7:167-75.PMID: 16187359 [PubMed - indexed for MEDLINE]Related articles

Assessment of fold recognition predictions in CASP6.

Wang G, Jin Y, Dunbrack RL Jr.

Proteins. 2005;61 Suppl 7:46-66.PMID: 16187346 [PubMed - indexed for MEDLINE]Related articles

Domain definition and target classification for CASP6.

Tress M, Tai CH, Wang G, Ezkurdia I, López G, Valencia A, Lee B, Dunbrack RL Jr.

Proteins. 2005;61 Suppl 7:8-18.PMID: 16187342 [PubMed - indexed for MEDLINE]Related articles

PISCES: recent improvements to a PDB sequence culling server.

Wang G, Dunbrack RL Jr.

Nucleic Acids Res. 2005 Jul 1;33(Web Server issue):W94-8.PMID: 15980589 [PubMed - indexed for MEDLINE]Related articlesFree article

MollDE: a homology modeling framework you can click with.

Canutescu AA, Dunbrack RL Jr.

Bioinformatics. 2005 Jun 15;21(12):2914-6. Epub 2005 Apr 21.PMID: 15845657 [PubMed - indexed for MEDLINE]Related articlesFree article

Formation of MacroH2A-containing senescence-associated heterochromatin foci and senescence driven by ASF1a and HIRA.

Zhang R, Poustovoitov MV, Ye X, Santos HA, Chen W, Daganzo SM, Erzberger JP, Serebriiskii IG, Canutescu AA, Dunbrack RL, Pehrson JR, Berger JM, Kaufman PD, Adams PD.

Dev Cell. 2005 Jan;8(1):19-30.PMID: 15621527 [PubMed - indexed for MEDLINE]Related articles

Scoring profile-to-profile sequence alignments.

Wang G, Dunbrack RL Jr.

Protein Sci. 2004 Jun;13(6):1612-26.PMID: 15152092 [PubMed - indexed for MEDLINE]Related articlesFree article