|
Papers (2004-2007)
Eletr ZM, Kuhlman B. "Sequence Determinants of E2-E6AP Binding Affinity and
Specificity".
J Mol Biol.
2007 Jun 1;369(2):419-28. Epub 2007 Mar 19.
PMID: 17433363 [PubMed - in process]
[view]
Pham Y, Li L, Kim A, Erdogan O, Weinreb V, Butterfoss
GL, Kuhlman B, Carter CW Jr. "A
minimal TrpRS catalytic domain supports sense/antisense
ancestry of class I and II aminoacyl-tRNA synthetases."
Mol Cell.
2007 Mar 23;25(6):851-62. PMID: 17386262 [PubMed -
indexed for MEDLINE]
[view]
Leaver-Fay A, Butterfoss GL, Snoeyink J, Kuhlman B."Maintaining solvent accessible surface area under rotamer substitution for protein design."
J
Comput Chem. 2007 Jun;28(8):1336-41. PMID:
17285560 [PubMed - indexed for MEDLINE]
[view]
Dantas G, Watters AL, Lunde
BM, Eletr ZM, Isern NG, Roseman T, Lipfert J, Doniach S,
Tompa M, Kuhlman B, Stoddard BL, Varani G, Baker D. "Mis-translation
of a computationally designed protein yields an
exceptionally stable homodimer: implications for protein
engineering and evolution."
J Mol Biol.
2006 Oct 6;362(5):1004-24. Epub 2006 Aug 4.
PMID: 16949611 [PubMed - indexed for MEDLINE]
[view]
Ambroggio XI, Kuhlman B."Design
of protein conformational switches."
Curr Opin Struct
Biol. 2006 Aug;16(4):525-30. Epub 2006 Jun 12. PMID:
16765587 [PubMed - indexed for
MEDLINE]
[view]
Hu X, Kuhlman B.
"Protein design simulations suggest that side-chain
conformational entropy is not a strong determinant of
amino acid environmental preferences."
Proteins. 2006 Mar
15;62(3):739-48.PMID: 16317667 [PubMed -
- indexed for MEDLINE]
[view]
Liu Y, Kuhlman B."RosettaDesign
server for protein design."
Nucleic Acids Res.
2006 Jul 1;34(Web Server issue):W235-8.PMID: 16845000 [PubMed
- indexed for MEDLINE]
[view]
Ambroggio XI, Kuhlman B.
"Computational design of a single amino acid sequence
that can switch between two distinct protein folds. "
J Am Chem Soc. 2006
Feb 1;128(4):1154-61. PMID: 16433531 [PubMed -
- indexed for MEDLINE]
[view]
Jiang L, Kuhlman B,
Kortemme T, Baker D "A "solvated rotamer" approach to
modeling water-mediated hydrogen bonds at
protein-protein interfaces."
Proteins. 2005 Mar 1;58(4):893-904. PMID: 15651050 [PubMed
- indexed for MEDLINE]
[view]
Eletr ZM, Huang DT, Duda
DM, Schulman BA, Kuhlman B "E2 conjugating enzymes
must disengage from their E1 enzymes before E3-dependent
ubiquitin and ubiquitin-like transfer. "
Nat Struct Mol Biol.
2005 Oct;12(10):933-4. Epub 2005 Sep 4. PMID: 16142244 [PubMed
- indexed for MEDLINE]
[view]
Leaver-Fay A, Kuhlman B,
Snoeyink J. "An adaptive dynamic programming
algorithm for the side chain placement problem "
Pac Symp
Biocomput.2005;:16-27. PMID: 15759610 [PubMed - indexed
for MEDLINE]
[view]
Butterfoss GL, Kuhlman B.
"Computer-Based Design of Novel Protein Structures."
Annu Rev Biophys
Biomol Struct. 2005 Dec 7; [Epub ahead of print] PMID:
16336082 [PubMed - as supplied by publisher]
[view]
Kuhlman B, Baker D.
"Exploring folding free energy landscapes using
computational protein design."
Curr Opin Struct
Biol. 2004 Feb;14(1):89-95. Review. PMID: 15102454 [PubMed
- indexed for MEDLINE]
[view]
Papers (2001-2003)
Kuhlman B, Dantas G, Ireton
GC, Varani G, Stoddard BL, Baker D, "Design of a
novel globular protein fold with atomic-level accuracy."
Science. 2003 Nov
21;302(5649):1364-8.PMID: 14631033 PMID: 14631033 [PubMed
- indexed for MEDLINE]
[view]
Dantas G, Kuhlman B,
Callender D, Wong M, Baker D., "A large scale test of
computational protein design: folding and stability of
nine completely redesigned globular proteins."
J Mol Biol. 2003 Sep 12;332(2):449-60. PMID: 12948494 [PubMed
- indexed for MEDLINE]
[view]
Tsai J, Bonneau R,
Morozov AV, Kuhlman B, Rohl CA, Baker D, "An improved
protein decoy set for testing energy functions for
protein structure prediction."
Proteins. 2003 Oct 1;53(1):76-87.PMID: 12945051 [PubMed
- indexed for MEDLINE]>
[view]
Gray JJ, Moughon S, Wang
C, Schueler-Furman O, Kuhlman B, Rohl CA, Baker D.,
"Protein-protein docking with simultaneous optimization
of rigid-body displacement and side-chain
conformations."
J Mol Biol. 2003 Aug 1;331(1):281-99.PMID: 12875852 [PubMed
- indexed for MEDLINE]
[view]
Nauli S, Kuhlman B, Le
Trong I, Stenkamp RE, Teller D, Baker D, "Crystal
structures and increased stabilization of the protein G
variants with switched folding pathways NuG1 and NuG2."
Protein Sci. 2002 Dec;11(12):2924-31.PMID: 12441390 [PubMed
- indexed for MEDLINE]
[view]
Kuhlman B, O'Neill JW,
Kim DE, Zhang KY, Baker D., "Accurate computer-based
design of a new backbone conformation in the second turn
of protein L."
J Mol Biol. 2002 Jan 18;315(3):471-7.PMID: 11786026 [PubMed
- indexed for MEDLINE]
[view]
Kuhlman B, O'Neill JW,
Kim DE, Zhang KY, Baker D., "Conversion of monomeric
protein L to an obligate dimer by computational protein
design."
Proc Natl Acad Sci U S A. 2001 Sep 11;98(19):10687-91.
Epub 2001 Aug 28. Erratum in: Proc Natl Acad Sci U S A
2002 May 28;99(11):7809. PMID: 11526208 [PubMed -
indexed for MEDLINE]
[view]
Nauli S, Kuhlman B, Baker
D., "Computer-based redesign of a protein folding
pathway."
Nat Struct Biol. 2001 Jul;8(7):602-5.PMID: 11427890 [PubMed
- indexed for MEDLINE]
[view]
Kuhlman B, Baker D.,
"Native protein sequences are close to optimal for their
structures."
Proc Natl Acad Sci U S A. 2000 Sep 12;97(19):10383-8.
Erratum in: Proc Natl Acad Sci U S A. 2000 Nov
21;97(24):13460.PMID: 10984534 [PubMed - indexed for
MEDLINE]
[view]
Papers (1997 - 1999)
Luisi DL, Kuhlman B, Sideras
K, Evans PA, Raleigh DP., "Effects of varying the
local propensity to form secondary structure on the
stability and folding kinetics of a rapid folding mixed
alpha/beta protein: characterization of a truncation
mutant of the N-terminal domain of the ribosomal protein
L9."
J Mol Biol. 1999 May 28;289(1):167-74.PMID: 10339414 [PubMed
- indexed for MEDLINE]
[view]
Sato S, Kuhlman B, Wu WJ,
Raleigh DP., "Folding of the multidomain ribosomal
protein L9: the two domains fold independently with
remarkably different rates."
Biochemistry. 1999 Apr 27;38(17):5643-50.PMID: 10220353
[PubMed - indexed for MEDLINE]
[view]
Kuhlman B, Luisi DL,
Young P, Raleigh DP., "pKa values and the pH
dependent stability of the N-terminal domain of L9 as
probes of electrostatic interactions in the denatured
state. Differentiation between local and nonlocal
interactions."
Biochemistry. 1999 Apr 13;38(15):4896-903.PMID: 10200179
[PubMed - indexed for MEDLINE]
[view]
Kuhlman B, Luisi DL,
Evans PA, Raleigh DP., "Global analysis of the
effects of temperature and denaturant on the folding and
unfolding kinetics of the N-terminal domain of the
protein L9."
J Mol Biol. 1998 Dec 18;284(5):1661-70.PMID: 9878377 [PubMed
- indexed for MEDLINE]
[view]
Kuhlman B, Raleigh DP.,
"Global analysis of the thermal and chemical
denaturation of the N-terminal domain of the ribosomal
protein L9 in H2O and D2O. Determination of the
thermodynamic parameters, deltaH(o), deltaS(o), and
deltaC(o)p and evaluation of solvent isotope effects."
Protein Sci. 1998 Nov;7(11):2405-12.PMID: 9828007 [PubMed
- indexed for MEDLINE]
[view]
Vugmeyster L, Kuhlman B,
Raleigh DP., "Amide proton exchange measurements as a
probe of the stability and dynamics of the N-terminal
domain of the ribosomal protein L9: comparison with the
intact protein."
Protein Sci. 1998 Sep;7(9):1994-7.PMID: 9761480 [PubMed
- indexed for MEDLINE]
[view]
Spector S, Kuhlman B,
Fairman R, Wong E, Boice JA, Raleigh DP.,
"Cooperative folding of a protein mini domain: the
peripheral subunit-binding domain of the pyruvate
dehydrogenase multienzyme complex."
J Mol Biol. 1998 Feb 20;276(2):479-89.PMID: 9512717 [PubMed
- indexed for MEDLINE]
[view]
Kuhlman B, Boice JA,
Fairman R, Raleigh DP., "Structure and stability of
the N-terminal domain of the ribosomal protein L9:
evidence for rapid two-state folding."
Biochemistry. 1998 Jan 27;37(4):1025-32.PMID: 9454593 [PubMed
- indexed for MEDLINE]
[view]
Kuhlman B, Yang HY, Boice
JA, Fairman R, Raleigh DP., "An exceptionally stable
helix from the ribosomal protein L9: implications for
protein folding and stability."
J Mol Biol. 1997 Aug 1;270(5):640-7.PMID: 9245593
[PubMed - indexed for MEDLINE]
[view]
Kuhlman B, Boice JA, Wu
WJ, Fairman R, Raleigh DP., "Calcium binding peptides
from alpha-lactalbumin: implications for protein folding
and stability."
Biochemistry. 1997 Apr 15;36(15):4607-15.PMID: 9109670
[PubMed - indexed for MEDLINE]
[view]
Last Modified:
Tuesday, June 12, 2007 02:16 PM
| Copyright © 2005-2007 University of North
Carolina
|
