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1

Rotamer Libraries in the 21st Century

Roland L Dunbrack Jr.

Journal:

Current Opinion in Structural Biology

Year:

2002

Language:

english

File:

PDF, 100 KB

english, 2002

2

Comparative modeling of CASP3 targets using PSI-BLAST and SCWRL

Roland L. Dunbrack Jr.

Journal:

Proteins: Structure, Function, and Bioinformatics

Year:

1999

Language:

english

File:

PDF, 102 KB

english, 1999

3

Large-scale comparison of protein sequence alignment algorithms with structure alignments

J. Michael Sauder, Jonathan W. Arthur, Roland L. Dunbrack Jr.

Journal:

Proteins: Structure, Function, and Bioinformatics

Year:

2000

Language:

english

File:

PDF, 288 KB

english, 2000

4

Bayesian statistical analysis of protein side-chain rotamer preferences

Roland L. Dunbrack Jr., Fred E. Cohen

Journal:

Protein Science

Year:

1997

Language:

english

File:

PDF, 7.44 MB

english, 1997

5

CAFASP2: The second critical assessment of fully automated structure prediction methods

Daniel Fischer, Arne Elofsson, Leszek Rychlewski, Florencio Pazos, Alfonso Valencia, Burkhard Rost, Angel R. Ortiz, Roland L. Dunbrack Jr.

Journal:

Proteins: Structure, Function, and Bioinformatics

Year:

2001

Language:

english

File:

PDF, 378 KB

english, 2001

6

CAFASP3: The third critical assessment of fully automated structure prediction methods

Daniel Fischer, Leszek Rychlewski, Roland L. Dunbrack Jr., Angel R. Ortiz, Arne Elofsson

Journal:

Proteins: Structure, Function, and Bioinformatics

Year:

2003

Language:

english

File:

PDF, 1.68 MB

english, 2003

7

Assessment of fold recognition predictions in CASP6

Guoli Wang, Yumi Jin, Roland L. Dunbrack Jr.

Journal:

Proteins: Structure, Function, and Bioinformatics

Year:

2005

Language:

english

File:

PDF, 1.17 MB

english, 2005

8

Assessment of disorder predictions in CASP6

Yumi Jin, Roland L. Dunbrack Jr.

Journal:

Proteins: Structure, Function, and Bioinformatics

Year:

2005

Language:

english

File:

PDF, 368 KB

english, 2005

9

Domain definition and target classification for CASP6

Michael Tress, Chin-Hsien Tai, Guoli Wang, Iakes Ezkurdia, Gonzalo López, Alfonso Valencia, Byungkook Lee, Roland L. Dunbrack Jr.

Journal:

Proteins: Structure, Function, and Bioinformatics

Year:

2005

Language:

english

File:

PDF, 473 KB

english, 2005

10

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

Maxim V. Shapovalov, Roland L. Dunbrack Jr.

Journal:

Proteins: Structure, Function, and Bioinformatics

Year:

2007

Language:

english

File:

PDF, 2.67 MB

english, 2007

11

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

Brian Weitzner, Thomas Meehan, Qifang Xu, Roland L. Dunbrack Jr.

Journal:

Proteins: Structure, Function, and Bioinformatics

Year:

2009

Language:

english

File:

PDF, 327 KB

english, 2009

12

Improved prediction of protein side-chain conformations with SCWRL4

Georgii G. Krivov, Maxim V. Shapovalov, Roland L. Dunbrack Jr.

Journal:

Proteins: Structure, Function, and Bioinformatics

Year:

2009

Language:

english

File:

PDF, 742 KB

english, 2009

13

Testing computational prediction of missense mutation phenotypes: Functional characterization of 204 mutations of human cystathionine beta synthase

Qiong Wei, Liqun Wang, Qiang Wang, Warren D. Kruger, Roland L. Dunbrack Jr.

Journal:

Proteins: Structure, Function, and Bioinformatics

Year:

2010

Language:

english

File:

PDF, 682 KB

english, 2010

14

Minimal ensembles of side chain conformers for modeling protein–protein interactions

Dmitri Beglov, David R. Hall, Ryan Brenke, Maxim V. Shapovalov, Roland L. Dunbrack Jr., Dima Kozakov, Sandor Vajda

Journal:

Proteins: Structure, Function, and Bioinformatics

Year:

2012

Language:

english

File:

PDF, 1.57 MB

english, 2012

15

Mutational Analysis of the Structure and Function of the CD4 Protein

Carolyn Doyle, Jaekyoon Shin, Roland L. Dunbrack Jr., Jack L. Strominger

Journal:

Immunological Reviews

Year:

1989

Language:

english

File:

PDF, 6.23 MB

english, 1989

16

Scoring profile-to-profile sequence alignments

Guoli Wang, Roland L. Dunbrack Jr.

Journal:

Protein Science

Year:

2004

Language:

english

File:

PDF, 576 KB

english, 2004

17

Entamoeba histolytica:Computer-Assisted Modeling of Phosphofructokinase for the Prediction of Broad-Spectrum Antiparasitic Agents

Carrie L. Byington, Roland L. Dunbrack Jr., Frank G. Whitby, Fred E. Cohen, Nina Agabian

Journal:

Experimental Parasitology

Year:

1997

Language:

english

File:

PDF, 335 KB

english, 1997

18

Sequence comparison and protein structure prediction

Roland L Dunbrack Jr

Journal:

Current Opinion in Structural Biology

Year:

2006

Language:

english

File:

PDF, 183 KB

english, 2006

19

Outcome of a Workshop on Archiving Structural Models of Biological Macromolecules

Helen M. Berman, Stephen K. Burley, Wah Chiu, Andrej Sali, Alexei Adzhubei, Philip E. Bourne, Stephen H. Bryant, Roland L. Dunbrack Jr., Krzysztof Fidelis, Joachim Frank, Adam Godzik, Kim Henrick, And

Journal:

Year:

2006

Language:

english

File:

PDF, 162 KB

english, 2006

20

Outcome of a Workshop on Applications of Protein Models in Biomedical Research

Torsten Schwede, Andrej Sali, Barry Honig, Michael Levitt, Helen M. Berman, David Jones, Steven E. Brenner, Stephen K. Burley, Rhiju Das, Nikolay V. Dokholyan, Roland L. Dunbrack Jr., Krzysztof Fideli

Journal:

Year:

2009

Language:

english

File:

PDF, 249 KB

english, 2009

21

Conformation Dependence of Backbone Geometry in Proteins

Donald S. Berkholz, Maxim V. Shapovalov, Roland L. Dunbrack Jr., P. Andrew Karplus

Journal:

Year:

2009

Language:

english

File:

PDF, 1.01 MB

english, 2009

22

A Smoothed Backbone-Dependent Rotamer Library for Proteins Derived from Adaptive Kernel Density Estimates and Regressions

Maxim V. Shapovalov, Roland L. Dunbrack Jr.

Journal:

Year:

2011

Language:

english

File:

PDF, 2.92 MB

english, 2011

23

Chiral N-substituted glycines can form stable helical conformations

Philippe Armand, Kent Kirshenbaum, Alexis Falicov, Roland L Dunbrack Jr, Ken A Dill, Ronald N Zuckermann, Fred E Cohen

Journal:

Folding and Design

Year:

1997

Language:

english

File:

PDF, 625 KB

english, 1997

24

Meeting review: the Second Meeting on the Critical Assessment of Techniques for Protein Structure Prediction (CASP2), Asilomar, California, December 13–16, 1996

Roland L Dunbrack Jr, Dietlind L Gerloff, Michael Bower, Xiaowu Chen, Olivier Lichtarge, Fred E Cohen

Journal:

Folding and Design

Year:

1997

Language:

english

File:

PDF, 523 KB

english, 1997

25

Identification and Structural Analysis of Human RBM8A and RBM8B: Two Highly Conserved RNA-Binding Motif Proteins That Interact with OVCA1, a Candidate Tumor Suppressor

Ana M. Salicioni, Mingrong Xi, Lisa A. Vanderveer, Binaifer Balsara, Joseph R. Testa, Roland L. Dunbrack Jr., Andrew K. Godwin

Journal:

Year:

2000

Language:

english

File:

PDF, 631 KB

english, 2000

26

Identification and Characterization of a Paralog of Human Cell Cycle Checkpoint Gene HUS1

Haiying Hang, Yuzhu Zhang, Roland L. Dunbrack Jr., Cuidong Wang, Howard B. Lieberman

Journal:

Year:

2002

Language:

english

File:

PDF, 293 KB

english, 2002

27

Backbone-dependent Rotamer Library for Proteins Application to Side-chain Prediction

Roland L. Dunbrack Jr, Martin Karplus

Journal:

Journal of Molecular Biology

Year:

1993

File:

PDF, 1.68 MB

1993

28

Prediction of protein side-chain rotamers from a backbone-dependent rotamer library: a new homology modeling tool

Michael J. Bower, Fred E. Cohen, Roland L. Dunbrack Jr

Journal:

Journal of Molecular Biology

Year:

1997

Language:

english

File:

PDF, 495 KB

english, 1997

29

Modeling of substrate specificity of the Alzheimer’s disease amyloid precursor protein β-secretase

J.Michael Sauder, Jonathan W. Arthur, Roland L. Dunbrack Jr

Journal:

Journal of Molecular Biology

Year:

2000

Language:

english

File:

PDF, 790 KB

english, 2000

30

Statistical Analysis of Interface Similarity in Crystals of Homologous Proteins

Qifang Xu, Adrian A. Canutescu, Guoli Wang, Maxim Shapovalov, Zoran Obradovic, Roland L. Dunbrack Jr

Journal:

Journal of Molecular Biology

Year:

2008

Language:

english

File:

PDF, 1.91 MB

english, 2008

31

A New Clustering of Antibody CDR Loop Conformations

Benjamin North, Andreas Lehmann, Roland L. Dunbrack Jr

Journal:

Journal of Molecular Biology

Year:

2011

Language:

english

File:

PDF, 2.26 MB

english, 2011

32

Protein-intrinsic and signaling network-based sources of resistance to EGFR- and ErbB family-targeted therapies in head and neck cancer

Ranee Mehra, Ilya G. Serebriiskii, Roland L. Dunbrack Jr., Matthew K. Robinson, Barbara Burtness, Erica A. Golemis

Journal:

Drug Resistance Updates

Year:

2011

Language:

english

File:

PDF, 2.13 MB

english, 2011

33

Cyclic coordinate descent: A robotics algorithm for protein loop closure

Adrian A. Canutescu, Roland L. Dunbrack Jr.

Journal:

Protein Science

Year:

2003

Language:

english

File:

PDF, 517 KB

english, 2003

34

A graph-theory algorithm for rapid protein side-chain prediction

Adrian A. Canutescu, Andrew A. Shelenkov, Roland L. Dunbrack Jr.

Journal:

Protein Science

Year:

2003

Language:

english

File:

PDF, 327 KB

english, 2003

35

Development of a Rotamer Library for Use in β-Peptide Foldamer Computational Design

Shandler, Scott J., Shapovalov, Maxim V., Dunbrack, Jr., Roland L., DeGrado, William F.

Journal:

Journal of the American Chemical Society

Year:

2010

Language:

english

File:

PDF, 3.28 MB

english, 2010

36

Proportionality: A Valid Alternative to Correlation for Relative Data

Lovell, David, Pawlowsky-Glahn, Vera, Egozcue, Juan José, Marguerat, Samuel, Bähler, Jürg, Dunbrack Jr., Roland L.

Journal:

PLoS Computational Biology

Year:

2015

Language:

english

File:

PDF, 356 KB

english, 2015

37

Signals for Retention of Transmembrane Proteins in the Endoplasmic Reticulum Studied with CD4 Truncation Mutants

Jaekyoon Shin, Roland L. Dunbrack, Jr., Songjae Lee and Jack L. Strominger

Journal:

Proceedings of the National Academy of Sciences

Year:

1991

Language:

english

File:

PDF, 1.24 MB

english, 1991

38

NIH Public Access

North, Benjamin, Lehmann, Andreas, Jr, Roland L Dunbrack

Year:

2012

Language:

english

File:

PDF, 1.11 MB

english, 2012

39

The PyRosetta Toolkit: A Graphical User Interface for the Rosetta Software Suite

Adolf-Bryfogle, Jared, Dunbrack Jr., Roland L., Sticht, Heinrich

Journal:

Year:

2013

Language:

english

File:

PDF, 1.32 MB

english, 2013

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