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Improvement in protein functional site prediction by distinguishing structural and functional constraints on protein family evolution using computational design

Submitted by Anonymous on Fri, 2010-11-12 04:39
Authors: 
Cheng, G., Qian, B., Samudrala, R. and Baker, D.
Volume: 
33
Link to Article: 
http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Citati...
Year: 
2005
Reference: 
Nucleic Acids Res
Pages: 
5861-5867
Lab: 
Baker
Publication Type: 
Method
Publication Subject: 
Other Rosetta Papers

Prediction of CASP6 structures using automated Robetta protocols

Submitted by Anonymous on Fri, 2010-11-12 04:39
Authors: 
Chivian, D., Kim, D. E., Malmstrom, L., Schonbrun, J., Rohl, C. A. and Baker, D.
Volume: 
61 Suppl 7
Link to Article: 
http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Citati...
Year: 
2005
Reference: 
Proteins
Pages: 
157-166
Lab: 
Baker
Publication Type: 
Method
Publication Subject: 
Other Rosetta Papers

A "solvated rotamer" approach to modeling water-mediated hydrogen bonds at protein-protein interfaces

Submitted by Anonymous on Fri, 2010-11-12 04:39
Authors: 
Jiang, L., Kuhlman, B., Kortemme, T. and Baker, D.
Volume: 
58
Link to Article: 
http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Citati...
Year: 
2005
Reference: 
Proteins
Pages: 
893-904
Lab: 
Baker
Publication Type: 
Method
Publication Subject: 
Other Rosetta Papers

Automated prediction of domain boundaries in CASP6 targets using Ginzu and RosettaDOM

Submitted by Anonymous on Fri, 2010-11-12 04:39
Authors: 
Kim, D. E., Chivian, D., Malmstrom, L. and Baker, D.
Volume: 
61 Suppl 7
Link to Article: 
http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Citati...
Year: 
2005
Reference: 
Proteins
Pages: 
193-200
Lab: 
Baker
Publication Type: 
Method
Publication Subject: 
Other Rosetta Papers

Progress and challenges in high-resolution refinement of protein structure models

Submitted by Anonymous on Fri, 2010-11-12 04:39
Authors: 
Misura, K. M. and Baker, D.
Volume: 
59
Link to Article: 
http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Citati...
Year: 
2005
Reference: 
Proteins
Pages: 
15-29
Lab: 
Baker
Publication Type: 
Method
Publication Subject: 
Other Rosetta Papers

Recapitulation of protein family divergence using flexible backbone protein design

Submitted by Anonymous on Fri, 2010-11-12 04:39
Authors: 
Saunders, C. T. and Baker, D.
Volume: 
346
Link to Article: 
http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Citati...
Year: 
2005
Reference: 
J Mol Biol
Pages: 
631-644
Lab: 
Baker
Publication Type: 
Method
Publication Subject: 
Other Rosetta Papers

Progress in protein-protein docking: atomic resolution predictions in the CAPRI experiment using RosettaDock with an improved treatment of side-chain flexibility

Submitted by Anonymous on Fri, 2010-11-12 04:39
Authors: 
Schueler-Furman, O., Wang, C. and Baker, D.
Volume: 
60
Link to Article: 
http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Citati...
Year: 
2005
Reference: 
Proteins
Pages: 
187-194
Lab: 
Baker
Publication Type: 
Method
Publication Subject: 
Other Rosetta Papers

Structural model of the mAb 806-EGFR complex using computational docking followed by computational and experimental mutagenesis

Submitted by Anonymous on Fri, 2010-11-12 04:39
Authors: 
Sivasubramanian, A., Chao, G., Pressler, H. M., Wittrup, K. D. and Gray, J. J.
Volume: 
14
Link to Article: 
http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Citati...
Year: 
2006
Reference: 
Structure
Pages: 
401-414
Lab: 
Gray
Publication Type: 
Method
Publication Subject: 
Other Rosetta Papers

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