-
2
-
-
13444292142
-
Electrostatic interactions involving lysine make major contributions to collagen triple-helix stability
-
A.V. Persikov, and J.A.M. Ramshaw B. Brodsky Electrostatic interactions involving lysine make major contributions to collagen triple-helix stability Biochemistry 44 2005 1414 1422
-
(2005)
Biochemistry
, vol.44
, pp. 1414-1422
-
-
Persikov, A.V.1
Ramshaw, J.A.M.2
Brodsky, B.3
-
3
-
-
84858050116
-
Structural insights into charge pair interactions in triple helical collagen-like proteins
-
J.A. Fallas, and J. Dong J.D. Hartgerink Structural insights into charge pair interactions in triple helical collagen-like proteins J. Biol. Chem. 287 2012 8039 8047
-
(2012)
J. Biol. Chem.
, vol.287
, pp. 8039-8047
-
-
Fallas, J.A.1
Dong, J.2
Hartgerink, J.D.3
-
4
-
-
70350353198
-
Solution structure of an ABC collagen heterotrimer reveals a single-register helix stabilized by electrostatic interactions
-
J.A. Fallas, V. Gauba, and J.D. Hartgerink Solution structure of an ABC collagen heterotrimer reveals a single-register helix stabilized by electrostatic interactions J. Biol. Chem. 284 2009 26851 26859
-
(2009)
J. Biol. Chem.
, vol.284
, pp. 26851-26859
-
-
Fallas, J.A.1
Gauba, V.2
Hartgerink, J.D.3
-
5
-
-
36849062200
-
Surprisingly high stability of collagen ABC heterotrimer: Evaluation of side chain charge pairs
-
V. Gauba, and J.D. Hartgerink Surprisingly high stability of collagen ABC heterotrimer: evaluation of side chain charge pairs J. Am. Chem. Soc. 129 2007 15034 15041
-
(2007)
J. Am. Chem. Soc.
, vol.129
, pp. 15034-15041
-
-
Gauba, V.1
Hartgerink, J.D.2
-
6
-
-
0028261035
-
Electrostatic interactions in collagen-like triple-helical peptides
-
M.G. Venugopal, and J.A. Ramshaw B. Brodsky Electrostatic interactions in collagen-like triple-helical peptides Biochemistry 33 1994 7948 7956
-
(1994)
Biochemistry
, vol.33
, pp. 7948-7956
-
-
Venugopal, M.G.1
Ramshaw, J.A.2
Brodsky, B.3
-
7
-
-
21444453832
-
Prediction of collagen stability from amino acid sequence
-
A.V. Persikov, J.A.M. Ramshaw, and B. Brodsky Prediction of collagen stability from amino acid sequence J. Biol. Chem. 280 2005 19343 19349
-
(2005)
J. Biol. Chem.
, vol.280
, pp. 19343-19349
-
-
Persikov, A.V.1
Ramshaw, J.A.M.2
Brodsky, B.3
-
8
-
-
84886751814
-
Rules derived from host-guest peptides allow prediction of triple-helix stability
-
A.V. Persikov, J. Ramshaw, and B. Brodsky Rules derived from host-guest peptides allow prediction of triple-helix stability Biophys. J. 88 2005 560a
-
(2005)
Biophys. J.
, vol.88
-
-
Persikov, A.V.1
Ramshaw, J.2
Brodsky, B.3
-
9
-
-
84886752656
-
Amino-acid pairwise interactions in collagen triple-helix
-
A.V. Persikov, and A. Kirkpatrick B. Brodsky Amino-acid pairwise interactions in collagen triple-helix Biophys. J. 82 2002 294a
-
(2002)
Biophys. J.
, vol.82
-
-
Persikov, A.V.1
Kirkpatrick, A.2
Brodsky, B.3
-
10
-
-
0034610308
-
Amino acid propensities for the collagen triple-helix
-
A.V. Persikov, and J.A.M. Ramshaw B. Brodsky Amino acid propensities for the collagen triple-helix Biochemistry 39 2000 14960 14967
-
(2000)
Biochemistry
, vol.39
, pp. 14960-14967
-
-
Persikov, A.V.1
Ramshaw, J.A.M.2
Brodsky, B.3
-
11
-
-
0034442555
-
Collagen model peptides: Sequence dependence of triple-helix stability
-
A.V. Persikov, J.A.M. Ramshaw, and B. Brodsky Collagen model peptides: sequence dependence of triple-helix stability Biopolymers 55 2000 436 450
-
(2000)
Biopolymers
, vol.55
, pp. 436-450
-
-
Persikov, A.V.1
Ramshaw, J.A.M.2
Brodsky, B.3
-
12
-
-
0031692464
-
Gly-X-Y tripeptide frequencies in collagen: A context for host-guest triple-helical peptides
-
J.A.M. Ramshaw, N.K. Shah, and B. Brodsky Gly-X-Y tripeptide frequencies in collagen: a context for host-guest triple-helical peptides J. Struct. Biol. 122 1998 86 91
-
(1998)
J. Struct. Biol.
, vol.122
, pp. 86-91
-
-
Ramshaw, J.A.M.1
Shah, N.K.2
Brodsky, B.3
-
13
-
-
0016669438
-
Conformational implications of amino acid sequence regularities in collagen
-
G. Salem, and W. Traub Conformational implications of amino acid sequence regularities in collagen FEBS Lett. 51 1975 94 99
-
(1975)
FEBS Lett.
, vol.51
, pp. 94-99
-
-
Salem, G.1
Traub, W.2
-
14
-
-
0036298978
-
Peptide investigations of pairwise interactions in the collagen triple-helix
-
A.V. Persikov, and J.A.M. Ramshaw B. Brodsky Peptide investigations of pairwise interactions in the collagen triple-helix J. Mol. Biol. 316 2002 385 394
-
(2002)
J. Mol. Biol.
, vol.316
, pp. 385-394
-
-
Persikov, A.V.1
Ramshaw, J.A.M.2
Brodsky, B.3
-
15
-
-
0034283338
-
Staggered molecular packing in crystals of a collagen-like peptide with a single charged pair
-
R.Z. Kramer, and M.G. Venugopal H.M. Berman Staggered molecular packing in crystals of a collagen-like peptide with a single charged pair J. Mol. Biol. 301 2000 1191 1205
-
(2000)
J. Mol. Biol.
, vol.301
, pp. 1191-1205
-
-
Kramer, R.Z.1
Venugopal, M.G.2
Berman, H.M.3
-
16
-
-
0004016501
-
Comparison of simple potential functions for simulating liquid water
-
W.L. Jorgensen, and J. Chandrasekhar M.L. Klein Comparison of simple potential functions for simulating liquid water J. Chem. Phys. 79 1983 926 935
-
(1983)
J. Chem. Phys.
, vol.79
, pp. 926-935
-
-
Jorgensen, W.L.1
Chandrasekhar, J.2
Klein, M.L.3
-
17
-
-
0000020246
-
A five-site model for liquid water and the reproduction of the density anomaly by rigid, nonpolarizable potential functions
-
M.W. Mahoney, and W.L. Jorgensen A five-site model for liquid water and the reproduction of the density anomaly by rigid, nonpolarizable potential functions J. Chem. Phys. 112 2000 8910 8922
-
(2000)
J. Chem. Phys.
, vol.112
, pp. 8910-8922
-
-
Mahoney, M.W.1
Jorgensen, W.L.2
-
18
-
-
33748518255
-
Comparison of multiple Amber force fields and development of improved protein backbone parameters
-
V. Hornak, and R. Abel C. Simmerling Comparison of multiple Amber force fields and development of improved protein backbone parameters Proteins 65 2006 712 725
-
(2006)
Proteins
, vol.65
, pp. 712-725
-
-
Hornak, V.1
Abel, R.2
Simmerling, C.3
-
19
-
-
84943502952
-
A molecular-dynamics method for simulations in the canonical ensemble
-
S. Nose A molecular-dynamics method for simulations in the canonical ensemble Mol. Phys. 52 1984 255 268
-
(1984)
Mol. Phys.
, vol.52
, pp. 255-268
-
-
Nose, S.1
-
20
-
-
0001538909
-
Canonical dynamics: Equilibrium phase-space distributions
-
W.G. Hoover Canonical dynamics: equilibrium phase-space distributions Phys. Rev. A 31 1985 1695 1697
-
(1985)
Phys. Rev. A
, vol.31
, pp. 1695-1697
-
-
Hoover, W.G.1
-
21
-
-
0019707626
-
Polymorphic transitions in single crystals - A new molecular dynamics method
-
M. Parrinello, and A. Rahman Polymorphic transitions in single crystals - a new molecular dynamics method J. Appl. Phys. 52 1981 7182 7190
-
(1981)
J. Appl. Phys.
, vol.52
, pp. 7182-7190
-
-
Parrinello, M.1
Rahman, A.2
-
22
-
-
84926811618
-
Constant pressure molecular dynamics for molecular systems
-
S. Nose, and M.L. Klein Constant pressure molecular dynamics for molecular systems Mol. Phys. 50 1983 1055 1076
-
(1983)
Mol. Phys.
, vol.50
, pp. 1055-1076
-
-
Nose, S.1
Klein, M.L.2
-
24
-
-
77953513118
-
Improved side-chain torsion potentials for the Amber ff99SB protein force field
-
K. Lindorff-Larsen, and S. Piana D.E. Shaw Improved side-chain torsion potentials for the Amber ff99SB protein force field Proteins 78 2010 1950 1958
-
(2010)
Proteins
, vol.78
, pp. 1950-1958
-
-
Lindorff-Larsen, K.1
Piana, S.2
Shaw, D.E.3
-
25
-
-
1842559515
-
Equilibrium thermal transitions of collagen model peptides
-
A.V. Persikov, Y.J. Xu, and B. Brodsky Equilibrium thermal transitions of collagen model peptides Protein Sci. 13 2004 893 902
-
(2004)
Protein Sci.
, vol.13
, pp. 893-902
-
-
Persikov, A.V.1
Xu, Y.J.2
Brodsky, B.3
-
26
-
-
79958769952
-
Statistical analysis of protein structures suggests that buried ionizable residues in proteins are hydrogen bonded or form salt bridges
-
J. Bush, and G.I. Makhatadze Statistical analysis of protein structures suggests that buried ionizable residues in proteins are hydrogen bonded or form salt bridges Proteins 79 2011 2027 2032
-
(2011)
Proteins
, vol.79
, pp. 2027-2032
-
-
Bush, J.1
Makhatadze, G.I.2
-
27
-
-
81055140446
-
Energetics of charge-charge interactions between residues adjacent in sequence
-
V.V. Loladze, and G.I. Makhatadze Energetics of charge-charge interactions between residues adjacent in sequence Proteins 79 2011 3494 3499
-
(2011)
Proteins
, vol.79
, pp. 3494-3499
-
-
Loladze, V.V.1
Makhatadze, G.I.2
-
28
-
-
0037432563
-
Contribution of surface salt bridges to protein stability: Guidelines for protein engineering
-
G.I. Makhatadze, and V.V. Loladze S.T. Thomas Contribution of surface salt bridges to protein stability: guidelines for protein engineering J. Mol. Biol. 327 2003 1135 1148
-
(2003)
J. Mol. Biol.
, vol.327
, pp. 1135-1148
-
-
Makhatadze, G.I.1
Loladze, V.V.2
Thomas, S.T.3
-
30
-
-
0021763134
-
On the environment of ionizable groups in globular proteins
-
A.A. Rashin, and B. Honig On the environment of ionizable groups in globular proteins J. Mol. Biol. 173 1984 515 521
-
(1984)
J. Mol. Biol.
, vol.173
, pp. 515-521
-
-
Rashin, A.A.1
Honig, B.2
-
32
-
-
0033583066
-
Sequence dependence of the folding of collagen-like peptides. Single amino acids affect the rate of triple-helix nucleation
-
M.S. Ackerman, and M. Bhate B. Brodsky Sequence dependence of the folding of collagen-like peptides. Single amino acids affect the rate of triple-helix nucleation J. Biol. Chem. 274 1999 7668 7673
-
(1999)
J. Biol. Chem.
, vol.274
, pp. 7668-7673
-
-
Ackerman, M.S.1
Bhate, M.2
Brodsky, B.3
-
33
-
-
77952994823
-
The contribution of interchain salt bridges to triple-helical stability in collagen
-
T. Gurry, P.S. Nerenberg, and C.M. Stultz The contribution of interchain salt bridges to triple-helical stability in collagen Biophys. J. 98 2010 2634 2643
-
(2010)
Biophys. J.
, vol.98
, pp. 2634-2643
-
-
Gurry, T.1
Nerenberg, P.S.2
Stultz, C.M.3
-
34
-
-
80455129245
-
Influence of water-protein hydrogen bonding on the stability of Trp-cage miniprotein. A comparison between the TIP3P and TIP4P-Ew water models
-
D. Paschek, R. Day, and A.E. García Influence of water-protein hydrogen bonding on the stability of Trp-cage miniprotein. A comparison between the TIP3P and TIP4P-Ew water models Phys. Chem. Chem. Phys. 13 2011 19840 19847
-
(2011)
Phys. Chem. Chem. Phys.
, vol.13
, pp. 19840-19847
-
-
Paschek, D.1
Day, R.2
García, A.E.3
-
35
-
-
77749285768
-
Equilibrium study of protein denaturation by urea
-
D.R. Canchi, D. Paschek, and A.E. García Equilibrium study of protein denaturation by urea J. Am. Chem. Soc. 132 2010 2338 2344
-
(2010)
J. Am. Chem. Soc.
, vol.132
, pp. 2338-2344
-
-
Canchi, D.R.1
Paschek, D.2
García, A.E.3
-
36
-
-
56649083699
-
Computing the stability diagram of the Trp-cage miniprotein
-
D. Paschek, S. Hempel, and A.E. García Computing the stability diagram of the Trp-cage miniprotein Proc. Natl. Acad. Sci. USA 105 2008 17754 17759
-
(2008)
Proc. Natl. Acad. Sci. USA
, vol.105
, pp. 17754-17759
-
-
Paschek, D.1
Hempel, S.2
García, A.E.3
-
37
-
-
80053253228
-
Protonation/deprotonation effects on the stability of the Trp-cage miniprotein
-
C.A. Jimenez-Cruz, G.I. Makhatadze, and A.E. Garcia Protonation/ deprotonation effects on the stability of the Trp-cage miniprotein Phys. Chem. Chem. Phys. 13 2011 17056 17063
-
(2011)
Phys. Chem. Chem. Phys.
, vol.13
, pp. 17056-17063
-
-
Jimenez-Cruz, C.A.1
Makhatadze, G.I.2
Garcia, A.E.3
|