-
1
-
-
0026320866
-
The energy landscapes and motions of proteins
-
Frauenfelder H., Sligar S.G., and Wolynes P.G. The energy landscapes and motions of proteins. Science 254 (1991) 1598-1603
-
(1991)
Science
, vol.254
, pp. 1598-1603
-
-
Frauenfelder, H.1
Sligar, S.G.2
Wolynes, P.G.3
-
2
-
-
0036725277
-
Molecular dynamics simulations of biomolecules
-
Karplus M., and McCammon J.A. Molecular dynamics simulations of biomolecules. Nature Struct. Biol. 9 (2002) 646-652
-
(2002)
Nature Struct. Biol.
, vol.9
, pp. 646-652
-
-
Karplus, M.1
McCammon, J.A.2
-
3
-
-
0041821836
-
A perspective on enzyme catalysis
-
Benkovic S.J., and Hammes-Schiffer S. A perspective on enzyme catalysis. Science 301 (2003) 1196-1202
-
(2003)
Science
, vol.301
, pp. 1196-1202
-
-
Benkovic, S.J.1
Hammes-Schiffer, S.2
-
4
-
-
12744263121
-
Simultaneous determination of protein structure and dynamics
-
Lindorff-Larsen K., Best R.B., Depristo M.A., Dobson C.M., and Vendruscolo M. Simultaneous determination of protein structure and dynamics. Nature 433 (2005) 128-132
-
(2005)
Nature
, vol.433
, pp. 128-132
-
-
Lindorff-Larsen, K.1
Best, R.B.2
Depristo, M.A.3
Dobson, C.M.4
Vendruscolo, M.5
-
5
-
-
0346365084
-
Rare fluctuations of native proteins sampled by equilibrium hydrogen exchange
-
Vendruscolo M., Paci E., Dobson C.M., and Karplus M. Rare fluctuations of native proteins sampled by equilibrium hydrogen exchange. J. Am. Chem. Soc. 125 (2003) 15686-15687
-
(2003)
J. Am. Chem. Soc.
, vol.125
, pp. 15686-15687
-
-
Vendruscolo, M.1
Paci, E.2
Dobson, C.M.3
Karplus, M.4
-
6
-
-
0018793861
-
Temperature-dependent X-ray diffraction as a probe of protein structural dynamics
-
Fraunfelder H., Petsko G.A., and Tsernoglou D. Temperature-dependent X-ray diffraction as a probe of protein structural dynamics. Nature 280 (1979) 558-563
-
(1979)
Nature
, vol.280
, pp. 558-563
-
-
Fraunfelder, H.1
Petsko, G.A.2
Tsernoglou, D.3
-
7
-
-
0021191208
-
Fluctuations in Protein structure from x-ray diffraction
-
Petsko G.A., and Ringe D. Fluctuations in Protein structure from x-ray diffraction. Annu. Rev. Biophys. Bioeng. 13 (1984) 331-371
-
(1984)
Annu. Rev. Biophys. Bioeng.
, vol.13
, pp. 331-371
-
-
Petsko, G.A.1
Ringe, D.2
-
9
-
-
0034595671
-
How soft is a protein? A protein dynamics force constant measured by neutron scattering
-
Zaccai G. How soft is a protein? A protein dynamics force constant measured by neutron scattering. Science 288 (2000) 1604-1607
-
(2000)
Science
, vol.288
, pp. 1604-1607
-
-
Zaccai, G.1
-
10
-
-
0141918782
-
Proteins in action: the physics of structural fluctuations and conformational changes
-
Parak F.G. Proteins in action: the physics of structural fluctuations and conformational changes. Curr. Opin. Struct. Biol. 13 (2003) 552-557
-
(2003)
Curr. Opin. Struct. Biol.
, vol.13
, pp. 552-557
-
-
Parak, F.G.1
-
11
-
-
0035312645
-
Steered molecular dynamics and mechanical functions of proteins
-
Isralewitz B., Gao M., and Schulten K. Steered molecular dynamics and mechanical functions of proteins. Curr. Opin. Struct. Biol. 11 (2001) 224-230
-
(2001)
Curr. Opin. Struct. Biol.
, vol.11
, pp. 224-230
-
-
Isralewitz, B.1
Gao, M.2
Schulten, K.3
-
12
-
-
0036721233
-
Normal mode analysis of macromolecular motions in a database framework: developing mode concentration as a useful classifying statistic
-
Krebs W.G., Alexandrov V., Wilson C.A., Echols N., Yu H., and Gerstein M. Normal mode analysis of macromolecular motions in a database framework: developing mode concentration as a useful classifying statistic. Proteins: Struct. Funct.Genet. 48 (2002) 682-695
-
(2002)
Proteins: Struct. Funct.Genet.
, vol.48
, pp. 682-695
-
-
Krebs, W.G.1
Alexandrov, V.2
Wilson, C.A.3
Echols, N.4
Yu, H.5
Gerstein, M.6
-
13
-
-
0022555894
-
Protein dynamics investigated by neutron diffraction
-
Kossiakoff A.A. Protein dynamics investigated by neutron diffraction. Methods Enzymol. 131 (1986) 433-447
-
(1986)
Methods Enzymol.
, vol.131
, pp. 433-447
-
-
Kossiakoff, A.A.1
-
14
-
-
0025037796
-
Comparison of the dynamics of myoglobin in different crystal forms
-
Phillips G.N.J. Comparison of the dynamics of myoglobin in different crystal forms. Biophys. J. 57 (1990) 381-383
-
(1990)
Biophys. J.
, vol.57
, pp. 381-383
-
-
Phillips, G.N.J.1
-
15
-
-
0026592954
-
Correlations of atomic movements in lysozyme crystals
-
Clarage J.B., Clarage M.S., Phillips W.C., Sweet R.M., and Caspar D.L. Correlations of atomic movements in lysozyme crystals. Proteins: Struct. Funct. Genet. 12 (1992) 145-157
-
(1992)
Proteins: Struct. Funct. Genet.
, vol.12
, pp. 145-157
-
-
Clarage, J.B.1
Clarage, M.S.2
Phillips, W.C.3
Sweet, R.M.4
Caspar, D.L.5
-
16
-
-
0035478585
-
Macromolecular crowding: obvious but underappreciated
-
Ellis R.J. Macromolecular crowding: obvious but underappreciated. Trends Biochem. Sci. 26 (2001) 597-604
-
(2001)
Trends Biochem. Sci.
, vol.26
, pp. 597-604
-
-
Ellis, R.J.1
-
17
-
-
0027310845
-
The control of protein stability and association by weak interactions with water: how do solvents affect these processes?
-
Timasheff S.N. The control of protein stability and association by weak interactions with water: how do solvents affect these processes?. Annu. Rev. Biophys. Biomol. Struct. 22 (1993) 67-97
-
(1993)
Annu. Rev. Biophys. Biomol. Struct.
, vol.22
, pp. 67-97
-
-
Timasheff, S.N.1
-
18
-
-
0037470574
-
Effect of dextran on protein stability and conformation attributed to macromolecular crowding
-
Sasahara K., McPhie P., and Minton A.P. Effect of dextran on protein stability and conformation attributed to macromolecular crowding. J. Mol. Biol. 326 (2003) 1227-1237
-
(2003)
J. Mol. Biol.
, vol.326
, pp. 1227-1237
-
-
Sasahara, K.1
McPhie, P.2
Minton, A.P.3
-
19
-
-
16344389134
-
Molecular crowding enhances native state stability and refolding rates of globular proteins
-
Cheung M.S., Klimov D., and Thirumalai D. Molecular crowding enhances native state stability and refolding rates of globular proteins. Proc. Natl. Acad. Sci. USA 102 (2005) 4753-4758
-
(2005)
Proc. Natl. Acad. Sci. USA
, vol.102
, pp. 4753-4758
-
-
Cheung, M.S.1
Klimov, D.2
Thirumalai, D.3
-
20
-
-
33646536078
-
The influence of macromolecular crowding on HIV-1 protease internal dynamics
-
Minh D.D., Chang C.E., Trylska J., Tozzini V., and McCammon J.A. The influence of macromolecular crowding on HIV-1 protease internal dynamics. J. Am. Chem. Soc. 128 (2006) 6006-6007
-
(2006)
J. Am. Chem. Soc.
, vol.128
, pp. 6006-6007
-
-
Minh, D.D.1
Chang, C.E.2
Trylska, J.3
Tozzini, V.4
McCammon, J.A.5
-
21
-
-
0033572725
-
Effects of macromolecular crowding on protein folding and aggregation
-
van den Berg B., Ellis R.J., and Dobson C.M. Effects of macromolecular crowding on protein folding and aggregation. EMBO J. 18 (1999) 6927-6933
-
(1999)
EMBO J.
, vol.18
, pp. 6927-6933
-
-
van den Berg, B.1
Ellis, R.J.2
Dobson, C.M.3
-
22
-
-
0034254189
-
Macromolecular crowding perturbs protein refolding kinetics: implications for folding inside the cell
-
van den Berg B., Wain R., Dobson C., and Ellis R.J. Macromolecular crowding perturbs protein refolding kinetics: implications for folding inside the cell. EMBO J. 19 (2000) 3870-3875
-
(2000)
EMBO J.
, vol.19
, pp. 3870-3875
-
-
van den Berg, B.1
Wain, R.2
Dobson, C.3
Ellis, R.J.4
-
23
-
-
0041931122
-
Macromolecular crowding: qualitative and semiquantitative successes, quantitative challenges
-
Hall D., and Minton A.P. Macromolecular crowding: qualitative and semiquantitative successes, quantitative challenges. Biochim. Biophys. Acta 1649 (2003) 127-139
-
(2003)
Biochim. Biophys. Acta
, vol.1649
, pp. 127-139
-
-
Hall, D.1
Minton, A.P.2
-
24
-
-
0037907487
-
Effects of sucrose on conformational equilibria and fluctuations within the native-state ensemble of proteins
-
Kim Y.S., Jones L.S., Dong A., Kendrick B.S., Chang B.S., Manning M.C., et al. Effects of sucrose on conformational equilibria and fluctuations within the native-state ensemble of proteins. Protein Sci. 12 (2003) 1252-1261
-
(2003)
Protein Sci.
, vol.12
, pp. 1252-1261
-
-
Kim, Y.S.1
Jones, L.S.2
Dong, A.3
Kendrick, B.S.4
Chang, B.S.5
Manning, M.C.6
-
25
-
-
5444263418
-
Wide-angle X-ray solution scattering as a probe of ligand-induced conformational changes in proteins
-
Fischetti R.F., Rodi D.J., Gore D.B., and Makowski L. Wide-angle X-ray solution scattering as a probe of ligand-induced conformational changes in proteins. Chem. Biol. 11 (2004) 1431-1443
-
(2004)
Chem. Biol.
, vol.11
, pp. 1431-1443
-
-
Fischetti, R.F.1
Rodi, D.J.2
Gore, D.B.3
Makowski, L.4
-
26
-
-
0037188386
-
Protein conformations explored by difference high-angle solution X-ray scattering: oxidation state and temperature dependent changes in cytochrome C
-
Tiede D.M., Zhang R., and Siefert S. Protein conformations explored by difference high-angle solution X-ray scattering: oxidation state and temperature dependent changes in cytochrome C. Biochemistry 41 (2002) 6605-6614
-
(2002)
Biochemistry
, vol.41
, pp. 6605-6614
-
-
Tiede, D.M.1
Zhang, R.2
Siefert, S.3
-
27
-
-
0036657545
-
Structural hierarchy of several proteins observed by wide-angle solution scattering
-
Hirai M., Iwase H., Hayakawa T., Miura K., and Inoue K. Structural hierarchy of several proteins observed by wide-angle solution scattering. J. Synchotron Radiat. 9 (2002) 202-205
-
(2002)
J. Synchotron Radiat.
, vol.9
, pp. 202-205
-
-
Hirai, M.1
Iwase, H.2
Hayakawa, T.3
Miura, K.4
Inoue, K.5
-
28
-
-
0141571313
-
High-resolution wide-angle X-ray scattering of protein solutions: effect of beam dose on protein integrity
-
Fischetti R.F., Rodi D.J., Mirza A., Irving T.C., Kondrashkina E., and Makowski L. High-resolution wide-angle X-ray scattering of protein solutions: effect of beam dose on protein integrity. J. Synchrotron Radiat. 10 (2003) 398-404
-
(2003)
J. Synchrotron Radiat.
, vol.10
, pp. 398-404
-
-
Fischetti, R.F.1
Rodi, D.J.2
Mirza, A.3
Irving, T.C.4
Kondrashkina, E.5
Makowski, L.6
-
29
-
-
7444260852
-
Structural characterization of modular supramolecular architectures in solution
-
Tiede D.M., Zhang R., Chen L.X., Yu L., and Lindsey J.S. Structural characterization of modular supramolecular architectures in solution. J .Am. Chem. Soc. 126 (2004) 14054-14062
-
(2004)
J .Am. Chem. Soc.
, vol.126
, pp. 14054-14062
-
-
Tiede, D.M.1
Zhang, R.2
Chen, L.X.3
Yu, L.4
Lindsey, J.S.5
-
30
-
-
33644861376
-
X-ray diffraction "fingerprinting" of DNA structure in solution for quantitative evaluation of molecular dynamics simulation
-
Zuo X., Cui G., Mertz K.M.J., Zhang L., Lewis F.D., and Tiede D.M. X-ray diffraction "fingerprinting" of DNA structure in solution for quantitative evaluation of molecular dynamics simulation. Proc. Natl. Acad. Sci. USA 103 (2006) 3534-3539
-
(2006)
Proc. Natl. Acad. Sci. USA
, vol.103
, pp. 3534-3539
-
-
Zuo, X.1
Cui, G.2
Mertz, K.M.J.3
Zhang, L.4
Lewis, F.D.5
Tiede, D.M.6
-
31
-
-
0003438363
-
-
Dover Publications, Mineola, NY
-
Guinier A. X-ray Diffractions in Crystals, Imperfect Crystals, and Amorphous Bodies (1994), Dover Publications, Mineola, NY
-
(1994)
X-ray Diffractions in Crystals, Imperfect Crystals, and Amorphous Bodies
-
-
Guinier, A.1
-
32
-
-
0018863001
-
Recent developments in solution X-ray scattering
-
Luzzati V., and Tardieu A. Recent developments in solution X-ray scattering. Annu. Rev. Biophys. Bioeng. 9 (1980) 1-29
-
(1980)
Annu. Rev. Biophys. Bioeng.
, vol.9
, pp. 1-29
-
-
Luzzati, V.1
Tardieu, A.2
-
34
-
-
33646931175
-
NMR residual dipolar couplings as probes of biomolecular dynamics
-
Tolman J.R., and Ruan K. NMR residual dipolar couplings as probes of biomolecular dynamics. Chem. Rev. 106 (2006) 1720-1736
-
(2006)
Chem. Rev.
, vol.106
, pp. 1720-1736
-
-
Tolman, J.R.1
Ruan, K.2
-
35
-
-
25444532318
-
Identification of slow correlated motions in proteins using residual dipolar and hydrogen-bond scalar couplings
-
Bouvignies G., Bernado P., Meier S., Cho K., Grzesiek S., Bruschweiler R., and Blackledge M. Identification of slow correlated motions in proteins using residual dipolar and hydrogen-bond scalar couplings. Proc. Natl. Acad. Sci. USA 102 (2005) 13885-13890
-
(2005)
Proc. Natl. Acad. Sci. USA
, vol.102
, pp. 13885-13890
-
-
Bouvignies, G.1
Bernado, P.2
Meier, S.3
Cho, K.4
Grzesiek, S.5
Bruschweiler, R.6
Blackledge, M.7
-
36
-
-
0035925113
-
Structural and dynamic analysis of residual dipolar coupling data for proteins
-
Tolman J.R., Al-Hashimi H.M., Kay L.E., and Prestegard J.H. Structural and dynamic analysis of residual dipolar coupling data for proteins. J. Am. Chem. Soc. 123 (2001) 1416-1424
-
(2001)
J. Am. Chem. Soc.
, vol.123
, pp. 1416-1424
-
-
Tolman, J.R.1
Al-Hashimi, H.M.2
Kay, L.E.3
Prestegard, J.H.4
-
37
-
-
4143079167
-
Amplitudes of protein backbone dynamics and correlated motions in a small alpha/beta protein: correspondence of dipolar coupling and heteronuclear relaxation measurements
-
Clore G.M., and Schwieters C.D. Amplitudes of protein backbone dynamics and correlated motions in a small alpha/beta protein: correspondence of dipolar coupling and heteronuclear relaxation measurements. Biochemistry 43 (2004) 10678-10691
-
(2004)
Biochemistry
, vol.43
, pp. 10678-10691
-
-
Clore, G.M.1
Schwieters, C.D.2
-
39
-
-
0037457899
-
Quaternary structure of hemoglobin in solution
-
Lukin J.A., Kontaxis G., Simplaceanu V., Yuan Y., Bax A., and Ho C. Quaternary structure of hemoglobin in solution. Proc. Natl. Acad. Sci. USA 100 (2003) 517-520
-
(2003)
Proc. Natl. Acad. Sci. USA
, vol.100
, pp. 517-520
-
-
Lukin, J.A.1
Kontaxis, G.2
Simplaceanu, V.3
Yuan, Y.4
Bax, A.5
Ho, C.6
-
40
-
-
0034821018
-
Cross-correlated chemical shift modulation: a signature of slow internal motions in proteins
-
Fruh D., Tolman J.R., Bodenhausen G., and Zwahlen C. Cross-correlated chemical shift modulation: a signature of slow internal motions in proteins. J. Am. Chem. Soc. 123 (2001) 4810-4816
-
(2001)
J. Am. Chem. Soc.
, vol.123
, pp. 4810-4816
-
-
Fruh, D.1
Tolman, J.R.2
Bodenhausen, G.3
Zwahlen, C.4
-
41
-
-
1242331371
-
Evidence of slow motions by cross-correlated chemical shift modulation in deuterated and protonated proteins
-
Vugmeyster L., Perazzolo C., Wist J., Frueh D., and Bodenhausen G. Evidence of slow motions by cross-correlated chemical shift modulation in deuterated and protonated proteins. J. Biomol. NMR 28 (2004) 173-177
-
(2004)
J. Biomol. NMR
, vol.28
, pp. 173-177
-
-
Vugmeyster, L.1
Perazzolo, C.2
Wist, J.3
Frueh, D.4
Bodenhausen, G.5
-
42
-
-
0030990422
-
Are proteins even floppier than we thought?
-
Bax A., and Tjandra N. Are proteins even floppier than we thought?. Nature Struct. Biol. 4 (1997) 254-256
-
(1997)
Nature Struct. Biol.
, vol.4
, pp. 254-256
-
-
Bax, A.1
Tjandra, N.2
-
43
-
-
34250178787
-
A comparative NKR study of the polypeptide backbone dynamics of hemoglobin in the deoxy and carbonmoxy forms
-
Song X.-J., Yuan Y., Simplaceanu V., Sahu S.C., Ho N.T., and Ho C. A comparative NKR study of the polypeptide backbone dynamics of hemoglobin in the deoxy and carbonmoxy forms. Biochemistry 46 (2007) 6795-6803
-
(2007)
Biochemistry
, vol.46
, pp. 6795-6803
-
-
Song, X.-J.1
Yuan, Y.2
Simplaceanu, V.3
Sahu, S.C.4
Ho, N.T.5
Ho, C.6
-
44
-
-
0032311227
-
Molecular crowding: analysis of effects of high concentrations of inert cosolutes on biochemical equilibria and rates in terms of volume exclusion
-
Minton A.P. Molecular crowding: analysis of effects of high concentrations of inert cosolutes on biochemical equilibria and rates in terms of volume exclusion. Methods Enzymol. 295 (1998) 127-149
-
(1998)
Methods Enzymol.
, vol.295
, pp. 127-149
-
-
Minton, A.P.1
-
45
-
-
2442595947
-
Dynamics of human serum albumin studied by acoustic relaxation spectroscopy
-
Hushcha T., Kaatze U., and Peytcheva A. Dynamics of human serum albumin studied by acoustic relaxation spectroscopy. Biopolymers 74 (2004) 32-36
-
(2004)
Biopolymers
, vol.74
, pp. 32-36
-
-
Hushcha, T.1
Kaatze, U.2
Peytcheva, A.3
-
47
-
-
19944427743
-
The BioCAT undulator beamline 18ID: a facility for biological non-crystalline diffraction and X-ray absorption spectroscopy at the Advanced Photon Source
-
Fischetti R., Stepanov S., Rosenbaum G., Barrea R., Black E., Gore D., et al. The BioCAT undulator beamline 18ID: a facility for biological non-crystalline diffraction and X-ray absorption spectroscopy at the Advanced Photon Source. J. Synchrotron Radiat. 11 (2004) 399-405
-
(2004)
J. Synchrotron Radiat.
, vol.11
, pp. 399-405
-
-
Fischetti, R.1
Stepanov, S.2
Rosenbaum, G.3
Barrea, R.4
Black, E.5
Gore, D.6
-
48
-
-
36549026975
-
-
Hammersley, A. P. (1997). FIT2D: an introduction and overview. ESRF Internal Report, ESRF97HA02.
-
-
-
-
49
-
-
36549045668
-
-
Hammersley, A. P. (1998). FIT2D V9.129 reference manual V3.1. ESRF Internal Report, ESRF98HA01.
-
-
-
-
50
-
-
0029695129
-
Two-dimensional detector software: from real detector to idealised image or two-theta scan
-
Hammersley A.P., Svensson S.O., Hanfland M., Fitch A.N., and Hausermann D. Two-dimensional detector software: from real detector to idealised image or two-theta scan. High Press. Res. 14 (1996) 235-248
-
(1996)
High Press. Res.
, vol.14
, pp. 235-248
-
-
Hammersley, A.P.1
Svensson, S.O.2
Hanfland, M.3
Fitch, A.N.4
Hausermann, D.5
-
51
-
-
0029185933
-
CRYSOL-a program to evaluate X-ray solution scattering of biological macromolecules from atomic coordinates
-
Svergun D., Barferato C., and Koch M.H.J. CRYSOL-a program to evaluate X-ray solution scattering of biological macromolecules from atomic coordinates. J. Appl. Crystallog. 28 (1995) 768-773
-
(1995)
J. Appl. Crystallog.
, vol.28
, pp. 768-773
-
-
Svergun, D.1
Barferato, C.2
Koch, M.H.J.3
-
52
-
-
0028961335
-
SCOP: a structural classification of proteins database for the investigation of sequences and structures
-
Murzin A.G., Brenner S.E., Hubbard T., and Chothia C. SCOP: a structural classification of proteins database for the investigation of sequences and structures. J. Mol. Biol. 247 (1995) 536-540
-
(1995)
J. Mol. Biol.
, vol.247
, pp. 536-540
-
-
Murzin, A.G.1
Brenner, S.E.2
Hubbard, T.3
Chothia, C.4
|