Shapovalov, M. V. and Dunbrack, R.L. Jr. Statistical and conformational analysis of protein side-chain electron density. Proteins 66:279-303, 2007.
Krasley, E., Cooper, K.F., Mallory, M.J., Dunbrack, R., Strich, R. Regulation of the oxidative stress respone through Slt2p-dependent destruction of cyclin C in Saccharomyces cerevisiae. Genetics 172:1477-1486, 2006.
Dunbrack, R.L., Jr. Sequence comparison and protein structure prediction. Curr. Opin. Struct. Biol. 16:374-384, 2006.
Tang Y, Poustovoitov M.V., Zhoa K., Garfinkel M., Canutescu A., Dunbrack R.L., Jr., Adams P.D., Marmorstein R. Structure of a human ASF1a-HIRA complex and insights into specificity of histone chaperone complex assembly. Nat Struct Mol Biol. 13:921-929, 2006.
Berman, H.M., Burley, S.K., Chiu, W. Sali, A., Adzhubei, A., Bourne, P.E., Bryant, S.H., Dunbrack, R.L., Jr, Fidelis, K., Frank, J., Godzik, A., Henrick, K., Jonachimiak, A., Heymann, B., Jones, D., Markley, J.L., Moult, J., Montelione, G.T., Orengo, C., Rossmann, M.G. Rost, B., Saibil, H., Schwede, T., Standley, D.M., Westbrook, J.D. Outcome of a workshop on archiving structural models of biological macromolecules. Structure 14:1211-1217, 2006.
Xu, Q, Canutescu, A.A., and Dunbrack, R.L. Jr. ProtBuD: A database of biological unit structures of protein families and superfamilies. Bioinformatics 22:2876-2882, 2006.
Canutescu, A.A., Dunbrack, R.L., Jr. MOLIDE: a homology modeling program you can click with. Bioinformatics, in press.
Wang, G., Dunbrack, R.L., Jr. PISCES: improvements to a protein sequence culling server. Nucleic Acids Res. in press.
Wang, G., Dunbrack, R.L., Jr. PISCES: recent improvements to a PDB sequence culling server. Nucleic Acids Res. 33:W94-W98, 2005.
Jin, Y., Dunbrack, R.L., Jr. Assesment of disorder predictions in CASP6. Proteins Suppl. 7:167-175, 2005.
Wang, G., Jin, Y., Dunbrack, R.L., Jr. Assesment of fold recognition predictions in CASP6. Proteins Suppl. 7:46-66, 2005.
Tress, M., Tai, C.H., Wang, G., Exkurdia, I., Lopez, G., Valencia, A., Lee, B., Dunbrack, R.L., Jr. Domain definition and target classification for CASP6 Proteins Suppl. 7:8-18, 2005.
Kahsay, R.Y., Wang, G., Gao, G., Liao, L., Dunbrack, R.L., Jr. Quasi-consensus based comparison of profile hidden Markov models for protein sequences. Bioinformatics, 21:2287-2293, 2005.
Tarn, C., Merkel, E., Canutescu, A. Shen, W., Skorobogatko, Y., Heslin, M. Eisenberg, B., Birbe, R., Patchefsky, A., Dunbrack, R.L., Jr., Arnoletti, J., von Mehren, M., Godwin, A.K. Analysis of KIT mutations in sporadic and familial GIST: Therapeutic implications using protein modeling. Clin. Canc. Res., 11:3668-3677, 2005.
Zhang, R., Poustovoitov, M.V., Ye, X., Santos, H.A., Cheng, W., Duganzo, S.M., Erzberger, J.P., Serebriiskii, J.G., Canutescu, A.A., Dunbrack, R.L., Pehrson, J.R., Berger, J.M., Kaufman, P.D., Adams, P.D. Formation of MacroH2A-containing senescence-associated heterochromatin foci and senescence driven by ASFIa and HIRA. Dev. Cell 8:19-30, 2005.
Wang, G., Dunbrack, R.L. Jr. Scoring profile-to-profile sequence alignments. Protein Sci. 13:1612-1626, 2004.
Canutescu, A.A., Dunbrack, R.L., Jr. Cyclic coordinate descent: a new algorithm for loop closure in protein modeling. Protein Sci., 12:963-972, 2003.
Canutescu, A. A., Shelenkov, A. A., Dunbrack, R. L., Jr. A graph-theory algorithm for rapid protein side-chain prediction. Protein Sci. 12:2001-2014, 2003.
Dunbrack, R.L. Jr. A scoundrel's refuge. Nat. Struct. Biol. 10(8):590, 2003. (No Abstract Available)
Fischer, D., Rychlewski, L., Dunbrack, R.L., Jr., Ortiz, A.R., Elofsson, A. CAFASP3: the third critical assessment of fully automated structure prediction methods. Proteins 53(6):503-516, 2003.
Kundrat, L., Martins, J., Stith, L., Dunbrack, R. L., Jr., Jaffe. E. K. A structural basis for half-site metal binding revealed in Drosophila melanogaster porphobilinogen synthase. J. Biol. Chem., 278:31325-31330, 2003.
Wang, G., Dunbrack, R.L., Jr. PISCES: a protein sequence culling server. Bioinformatics 19:1589-1591, 2003.
Bove, B., Sauder, J.M., Dunbrack, R.L., Jr., Godwin, A.K. BRCA1, BRCA2, and hereditary breast cancer. In Breast Cancer: Prognosis-Treatment-Prevention, edited by J. Pasqualini. Marcel Dekker, New York, pp. 555-624, 2002.
Cheng, J.D., Dunbrack, R.L., Jr., Valianou, M., Rogatko, A., Alpaugh, R.K., Weiner, L.M. Promotion of tumor growth by murine fibroblast activation protein, a serine protease, in an animal model. Cancer Res. 62:4767-4772, 2002.
Dunbrack, R.L., Jr. Rotamer libraries in the 21st century. Curr. Opin. Struct. Biol. 12:431-440, 2002.
Grant, J.D., Dunbrack, R.L., Jr., Manion, F.J., Ochs, M.F. BeoBLAST: distributed BLAST and PSI-BLAST on a Beowulf cluster. Bioinformatics 18:765-766, 2002.
Hang, H., Zhang, Y., Dunbrack, R.L., Jr., Wang, C., Lieberman, H.B. Identification and characterization of a paralog of human cell cycle checkpoint gene HUS1. Genomics 79:487-492, 2002.
Kahsay, R.Y., Wang, G., Dongre, N., Gao, G., Dunbrack, R.L., Jr. CASA: a server for the critical assessment of protein sequence alignment accuracy. Bioinformatics 18:496-497, 2002.
Prowse, A.H., Vanderveer, L., Milling, S.W.F., Dunbrack, R.L., Jr., Xu, X-X., Godwin, A.K. OVCA2 is downregulated and degraded during retinoid-induced apoptosis. Int. J. Cancer 99:185-192, 2002.
Yi, J., Cheng, H., Andrake, M.D., Dunbrack, R.L., Jr., Roder, H., Skalka, A.M. Mapping the epitope of an inhibitory monoclonal antibody to the C-terminal DNA-binding domain of HIV-1 integrase. J. Biol. Chem. 277:12164-12174, 2002.
Dunbrack, R.L., Jr. Homology modeling in biology and medicine. In Bioinformatics: From Genomes to Drugs, edited by T. Lengauer. VCH-Wiley, Berlin, pp. 145-235, 2001.
Jaffe, E.K., Martins, J., Li, J., Kervinen, J., Dunbrack, R.L., Jr. The molecular mechanism of lead inhibition of human porphobilinogen synthase. J. Biol. Chem. 276:1531-1537, 2001.
Shan, X., Dunbrack, R.L., Jr., Christopher, S.A., Kruger, W.D. Mutations in the regulatory domain of cystathionine beta synthase can functionally suppress patient-derived mutations in cis. Hum Mol Genet. 10:635-643, 2001.