-
1
-
-
34547963038
-
Evolution of allosteric models for hemoglobin
-
Eaton WA, Henry ER, Hofrichter J, Bettati S, Viappiani C, Mozzarelli A. Evolution of allosteric models for hemoglobin. IUBMB Life 2007; 59: 586-599.
-
(2007)
IUBMB Life
, vol.59
, pp. 586-599
-
-
Eaton, W.A.1
Henry, E.R.2
Hofrichter, J.3
Bettati, S.4
Viappiani, C.5
Mozzarelli, A.6
-
2
-
-
79955842879
-
Hemoglobin-ligand binding: understanding Hb function and allostery on atomic level
-
Safo MK, Ahmed MH, Ghatge MS, Boyiri T. Hemoglobin-ligand binding: understanding Hb function and allostery on atomic level. Biochim Biophys Acta 2011; 1814: 797-809.
-
(2011)
Biochim Biophys Acta
, vol.1814
, pp. 797-809
-
-
Safo, M.K.1
Ahmed, M.H.2
Ghatge, M.S.3
Boyiri, T.4
-
3
-
-
0013863816
-
Comparison of experimental binding data and theoretical models in proteins containing subunits
-
Koshland DE, Jr, Nemethy G, Filmer D. Comparison of experimental binding data and theoretical models in proteins containing subunits. Biochemistry 1966; 5: 365-385.
-
(1966)
Biochemistry
, vol.5
, pp. 365-385
-
-
Koshland Jr., D.E.1
Nemethy, G.2
Filmer, D.3
-
4
-
-
78651189765
-
On the nature of allosteric transitions: a plausible model
-
Monod J, Wyman J, Changeux JP. On the nature of allosteric transitions: a plausible model. J Mol Biol 1965; 12: 88-118.
-
(1965)
J Mol Biol
, vol.12
, pp. 88-118
-
-
Monod, J.1
Wyman, J.2
Changeux, J.P.3
-
5
-
-
0000610156
-
Structure of haemoglobin. A three-dimensional Fourier synthesis of reduced human haemoglobin at 5-5 a resolution
-
Muirhead H, Perutz MF. Structure of haemoglobin. A three-dimensional Fourier synthesis of reduced human haemoglobin at 5-5 a resolution. Nature 1963; 199: 633-638.
-
(1963)
Nature
, vol.199
, pp. 633-638
-
-
Muirhead, H.1
Perutz, M.F.2
-
6
-
-
0021683974
-
The crystal structure of human deoxyhaemoglobin at 1.74 A resolution
-
Fermi G, Perutz MF, Shaanan B, Fourme R. The crystal structure of human deoxyhaemoglobin at 1.74 A resolution. J Mol Biol 1984; 175: 159-174.
-
(1984)
J Mol Biol
, vol.175
, pp. 159-174
-
-
Fermi, G.1
Perutz, M.F.2
Shaanan, B.3
Fourme, R.4
-
7
-
-
0014958182
-
Stereochemistry of cooperative effects in haemoglobin
-
Perutz MF. Stereochemistry of cooperative effects in haemoglobin. Nature 1970; 228: 726-739.
-
(1970)
Nature
, vol.228
, pp. 726-739
-
-
Perutz, M.F.1
-
8
-
-
0015506515
-
A mathematical model for structure-function relations in hemoglobin
-
Szabo A, Karplus M. A mathematical model for structure-function relations in hemoglobin. J Mol Biol 1972; 72: 163-197.
-
(1972)
J Mol Biol
, vol.72
, pp. 163-197
-
-
Szabo, A.1
Karplus, M.2
-
9
-
-
0026795182
-
A third quaternary structure of human hemoglobin A at 1.7-A resolution
-
Silva MM, Rogers PH, Arnone A. A third quaternary structure of human hemoglobin A at 1.7-A resolution. J Biol Chem 1992; 267: 17248-17256.
-
(1992)
J Biol Chem
, vol.267
, pp. 17248-17256
-
-
Silva, M.M.1
Rogers, P.H.2
Arnone, A.3
-
10
-
-
20444417111
-
The enigma of the liganded hemoglobin end state: a novel quaternary structure of human carbonmonoxy hemoglobin
-
Safo MK, Abraham DJ. The enigma of the liganded hemoglobin end state: a novel quaternary structure of human carbonmonoxy hemoglobin. Biochemistry 2005; 44: 8347-8359.
-
(2005)
Biochemistry
, vol.44
, pp. 8347-8359
-
-
Safo, M.K.1
Abraham, D.J.2
-
11
-
-
0034687668
-
Interface sliding as illustrated by the multiple quaternary structures of liganded hemoglobin
-
Mueser TC, Rogers PH, Arnone A. Interface sliding as illustrated by the multiple quaternary structures of liganded hemoglobin. Biochemistry 2000; 39: 15353-15364.
-
(2000)
Biochemistry
, vol.39
, pp. 15353-15364
-
-
Mueser, T.C.1
Rogers, P.H.2
Arnone, A.3
-
12
-
-
17644375152
-
Crystallographic evidence for a new ensemble of ligand-induced allosteric transitions in hemoglobin: the T-to-T(high) quaternary transitions
-
Kavanaugh JS, Rogers PH, Arnone A. Crystallographic evidence for a new ensemble of ligand-induced allosteric transitions in hemoglobin: the T-to-T(high) quaternary transitions. Biochemistry 2005; 44: 6101-6121.
-
(2005)
Biochemistry
, vol.44
, pp. 6101-6121
-
-
Kavanaugh, J.S.1
Rogers, P.H.2
Arnone, A.3
-
13
-
-
0037457899
-
Quaternary structure of hemoglobin in solution
-
Lukin JA, Kontaxis G, Simplaceanu V, Yuan Y, Bax A, Ho C. Quaternary structure of hemoglobin in solution. Proc Natl Acad Sci USA 2003; 100: 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
-
14
-
-
33645978391
-
Quaternary structure of carbonmonoxyhemoglobins in solution: structural changes induced by the allosteric effector inositol hexaphosphate
-
Gong Q, Simplaceanu V, Lukin JA, Giovannelli JL, Ho NT, Ho C. Quaternary structure of carbonmonoxyhemoglobins in solution: structural changes induced by the allosteric effector inositol hexaphosphate. Biochemistry 2006; 45: 5140-5148.
-
(2006)
Biochemistry
, vol.45
, pp. 5140-5148
-
-
Gong, Q.1
Simplaceanu, V.2
Lukin, J.A.3
Giovannelli, J.L.4
Ho, N.T.5
Ho, C.6
-
15
-
-
34548496030
-
Insights into the solution structure of human deoxyhemoglobin in the absence and presence of an allosteric effector
-
Sahu SC, Simplaceanu V, Gong Q, Ho NT, Tian F, Prestegard JH, Ho C. Insights into the solution structure of human deoxyhemoglobin in the absence and presence of an allosteric effector. Biochemistry 2007; 46: 9973-9980.
-
(2007)
Biochemistry
, vol.46
, pp. 9973-9980
-
-
Sahu, S.C.1
Simplaceanu, V.2
Gong, Q.3
Ho, N.T.4
Tian, F.5
Prestegard, J.H.6
Ho, C.7
-
16
-
-
80051581347
-
Hemoglobin allostery: variations on the theme
-
Bellelli A, Brunori M. Hemoglobin allostery: variations on the theme. Biochim Biophys Acta 2011; 1807: 1262-1272.
-
(2011)
Biochim Biophys Acta
, vol.1807
, pp. 1262-1272
-
-
Bellelli, A.1
Brunori, M.2
-
18
-
-
0001700167
-
Nanosecond absorption spectroscopy of hemoglobin: elementary processes in kinetic cooperativity
-
Hofrichter J, Sommer JH, Henry ER, Eaton WA. Nanosecond absorption spectroscopy of hemoglobin: elementary processes in kinetic cooperativity. Proc Natl Acad Sci USA 1983; 80: 2235-2239.
-
(1983)
Proc Natl Acad Sci USA
, vol.80
, pp. 2235-2239
-
-
Hofrichter, J.1
Sommer, J.H.2
Henry, E.R.3
Eaton, W.A.4
-
19
-
-
0028799067
-
Hemoglobin allostery: resonance Raman spectroscopy of kinetic intermediates
-
Jayaraman V, Rodgers KR, Mukerji I, Spiro TG. Hemoglobin allostery: resonance Raman spectroscopy of kinetic intermediates. Science 1995; 269: 1843-1848.
-
(1995)
Science
, vol.269
, pp. 1843-1848
-
-
Jayaraman, V.1
Rodgers, K.R.2
Mukerji, I.3
Spiro, T.G.4
-
20
-
-
0029999815
-
Allosteric intermediates in hemoglobin. I. Nanosecond time-resolved circular dichroism spectroscopy
-
Bjorling SC, Goldbeck RA, Paquette SJ, Milder SJ, Kliger DS. Allosteric intermediates in hemoglobin. I. Nanosecond time-resolved circular dichroism spectroscopy. Biochemistry 1996; 35: 8619-8627.
-
(1996)
Biochemistry
, vol.35
, pp. 8619-8627
-
-
Bjorling, S.C.1
Goldbeck, R.A.2
Paquette, S.J.3
Milder, S.J.4
Kliger, D.S.5
-
21
-
-
0029899611
-
Allosteric intermediates in hemoglobin. II. Kinetic modeling of HbCO photolysis
-
Goldbeck RA, Paquette SJ, Bjorling SC, Kliger DS. Allosteric intermediates in hemoglobin. II. Kinetic modeling of HbCO photolysis. Biochemistry 1996; 35: 8628-8639.
-
(1996)
Biochemistry
, vol.35
, pp. 8628-8639
-
-
Goldbeck, R.A.1
Paquette, S.J.2
Bjorling, S.C.3
Kliger, D.S.4
-
22
-
-
0037014715
-
Hydrogen bonding to Trp beta37 is the first step in a compound pathway for hemoglobin allostery
-
Goldbeck RA, Esquerra RM, Kliger DS. Hydrogen bonding to Trp beta37 is the first step in a compound pathway for hemoglobin allostery. J Am Chem Soc 2002; 124: 7646-7647.
-
(2002)
J Am Chem Soc
, vol.124
, pp. 7646-7647
-
-
Goldbeck, R.A.1
Esquerra, R.M.2
Kliger, D.S.3
-
23
-
-
53249113119
-
Tracking the structural dynamics of proteins in solution using time-resolved wide-angle X-ray scattering
-
Cammarata M, Levantino M, Schotte F, Anfinrud PA, Ewald F, Choi J, Cupane A, Wulff M, Ihee H. Tracking the structural dynamics of proteins in solution using time-resolved wide-angle X-ray scattering. Nat Methods 2008; 5: 881-886.
-
(2008)
Nat Methods
, vol.5
, pp. 881-886
-
-
Cammarata, M.1
Levantino, M.2
Schotte, F.3
Anfinrud, P.A.4
Ewald, F.5
Choi, J.6
Cupane, A.7
Wulff, M.8
Ihee, H.9
-
24
-
-
77954620238
-
Unveiling the timescale of the R-T transition in human hemoglobin
-
Cammarata M, Levantino M, Wulff M, Cupane A. Unveiling the timescale of the R-T transition in human hemoglobin. J Mol Biol 2010; 400: 951-962.
-
(2010)
J Mol Biol
, vol.400
, pp. 951-962
-
-
Cammarata, M.1
Levantino, M.2
Wulff, M.3
Cupane, A.4
-
25
-
-
0036099514
-
New insights into the allosteric mechanism of human hemoglobin from molecular dynamics simulations
-
Mouawad L, Perahia D, Robert CH, Guilbert C. New insights into the allosteric mechanism of human hemoglobin from molecular dynamics simulations. Biophys J 2002; 82: 3224-3245.
-
(2002)
Biophys J
, vol.82
, pp. 3224-3245
-
-
Mouawad, L.1
Perahia, D.2
Robert, C.H.3
Guilbert, C.4
-
26
-
-
33947730315
-
A 45-ns molecular dynamics simulation of hemoglobin in water by vectorizing and parallelizing COSMOS90 on the earth simulator: dynamics of tertiary and quaternary structures
-
Saito M, Okazaki I. A 45-ns molecular dynamics simulation of hemoglobin in water by vectorizing and parallelizing COSMOS90 on the earth simulator: dynamics of tertiary and quaternary structures. J Comput Chem 2007; 28: 1129-1136.
-
(2007)
J Comput Chem
, vol.28
, pp. 1129-1136
-
-
Saito, M.1
Okazaki, I.2
-
27
-
-
41649089359
-
Molecular dynamics simulations of hemoglobin A in different states and bound to DPG: effector-linked perturbation of tertiary conformations and HbA concerted dynamics
-
Laberge M, Yonetani T. Molecular dynamics simulations of hemoglobin A in different states and bound to DPG: effector-linked perturbation of tertiary conformations and HbA concerted dynamics. Biophys J 2008; 94: 2737-2751.
-
(2008)
Biophys J
, vol.94
, pp. 2737-2751
-
-
Laberge, M.1
Yonetani, T.2
-
28
-
-
77955505542
-
Spontaneous quaternary and tertiary T-R transitions of human hemoglobin in molecular dynamics simulation
-
Hub JS, Kubitzki MB, de Groot BL. Spontaneous quaternary and tertiary T-R transitions of human hemoglobin in molecular dynamics simulation. PLoS Comput Biol 2010; 6: e1000774.
-
(2010)
PLoS Comput Biol
, vol.6
-
-
Hub, J.S.1
Kubitzki, M.B.2
de Groot, B.L.3
-
29
-
-
0029937635
-
Motions in hemoglobin studied by normal mode analysis and energy minimization: evidence for the existence of tertiary T-like, quaternary R-like intermediate structures
-
Mouawad L, Perahia D. Motions in hemoglobin studied by normal mode analysis and energy minimization: evidence for the existence of tertiary T-like, quaternary R-like intermediate structures. J Mol Biol 1996; 258: 393-410.
-
(1996)
J Mol Biol
, vol.258
, pp. 393-410
-
-
Mouawad, L.1
Perahia, D.2
-
31
-
-
17044393884
-
Coarse-grained models for proteins
-
Tozzini V. Coarse-grained models for proteins. Curr Opin Struct Biol 2005; 15: 144-150.
-
(2005)
Curr Opin Struct Biol
, vol.15
, pp. 144-150
-
-
Tozzini, V.1
-
32
-
-
0035132230
-
Anisotropy of fluctuation dynamics of proteins with an elastic network model
-
Atilgan AR, Durell SR, Jernigan RL, Demirel MC, Keskin O, Bahar I. Anisotropy of fluctuation dynamics of proteins with an elastic network model. Biophys J 2001; 80: 505-515.
-
(2001)
Biophys J
, vol.80
, pp. 505-515
-
-
Atilgan, A.R.1
Durell, S.R.2
Jernigan, R.L.3
Demirel, M.C.4
Keskin, O.5
Bahar, I.6
-
33
-
-
0032533790
-
Analysis of domain motions by approximate normal mode calculations
-
Hinsen K. Analysis of domain motions by approximate normal mode calculations. Proteins 1998; 33: 417-429.
-
(1998)
Proteins
, vol.33
, pp. 417-429
-
-
Hinsen, K.1
-
34
-
-
0035044995
-
Conformational change of proteins arising from normal mode calculations
-
Tama F, Sanejouand YH. Conformational change of proteins arising from normal mode calculations. Protein Eng 2001; 14: 1-6.
-
(2001)
Protein Eng
, vol.14
, pp. 1-6
-
-
Tama, F.1
Sanejouand, Y.H.2
-
35
-
-
0000197372
-
Large amplitude elastic motions in proteins from a single-parameter, atomic analysis
-
Tirion MM. Large amplitude elastic motions in proteins from a single-parameter, atomic analysis. Phys Rev Lett 1996; 77: 1905-1908.
-
(1996)
Phys Rev Lett
, vol.77
, pp. 1905-1908
-
-
Tirion, M.M.1
-
36
-
-
0036721233
-
Normal mode analysis of macromolecular motions in a database framework: developing mode concentration as a useful classifying statistic
-
Krebs WG, Alexandrov V, Wilson CA, Echols N, Yu H, Gerstein M. Normal mode analysis of macromolecular motions in a database framework: developing mode concentration as a useful classifying statistic. Proteins 2002; 48: 682-695.
-
(2002)
Proteins
, 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
-
37
-
-
25844431698
-
Coarse-grained normal mode analysis in structural biology
-
Bahar I, Rader AJ. Coarse-grained normal mode analysis in structural biology. Curr Opin Struct Biol 2005; 15: 586-592.
-
(2005)
Curr Opin Struct Biol
, vol.15
, pp. 586-592
-
-
Bahar, I.1
Rader, A.J.2
-
38
-
-
65649154062
-
Allosteric transitions in biological nanomachines are described by robust normal modes of elastic networks
-
Zheng W, Brooks BR, Thirumalai D. Allosteric transitions in biological nanomachines are described by robust normal modes of elastic networks. Curr Protein Pept Sci 2009; 10: 128-132.
-
(2009)
Curr Protein Pept Sci
, vol.10
, pp. 128-132
-
-
Zheng, W.1
Brooks, B.R.2
Thirumalai, D.3
-
39
-
-
68149163617
-
Large-scale evaluation of dynamically important residues in proteins predicted by the perturbation analysis of a coarse-grained elastic model
-
Zheng W, Tekpinar M. Large-scale evaluation of dynamically important residues in proteins predicted by the perturbation analysis of a coarse-grained elastic model. BMC Struct Biol 2009; 9: 45.
-
(2009)
BMC Struct Biol
, vol.9
, pp. 45
-
-
Zheng, W.1
Tekpinar, M.2
-
40
-
-
34548304871
-
Protein conformational transitions explored by mixed elastic network models
-
Zheng W, Brooks BR, Hummer G. Protein conformational transitions explored by mixed elastic network models. Proteins 2007; 69: 43-57.
-
(2007)
Proteins
, vol.69
, pp. 43-57
-
-
Zheng, W.1
Brooks, B.R.2
Hummer, G.3
-
41
-
-
77955833735
-
Predicting order of conformational changes during protein conformational transitions using an interpolated elastic network model
-
Tekpinar M, Zheng W. Predicting order of conformational changes during protein conformational transitions using an interpolated elastic network model. Proteins 2010; 78: 2469-2481.
-
(2010)
Proteins
, vol.78
, pp. 2469-2481
-
-
Tekpinar, M.1
Zheng, W.2
-
42
-
-
34547586177
-
MinActionPath: maximum likelihood trajectory for large-scale structural transitions in a coarse-grained locally harmonic energy landscape
-
Franklin J, Koehl P, Doniach S, Delarue M. MinActionPath: maximum likelihood trajectory for large-scale structural transitions in a coarse-grained locally harmonic energy landscape. Nucleic Acids Res 2007; 35: W477-W482.
-
(2007)
Nucleic Acids Res
, vol.35
-
-
Franklin, J.1
Koehl, P.2
Doniach, S.3
Delarue, M.4
-
43
-
-
24644483073
-
Large amplitude conformational change in proteins explored with a plastic network model: adenylate kinase
-
Maragakis P, Karplus M. Large amplitude conformational change in proteins explored with a plastic network model: adenylate kinase. J Mol Biol 2005; 352: 807-822.
-
(2005)
J Mol Biol
, vol.352
, pp. 807-822
-
-
Maragakis, P.1
Karplus, M.2
-
44
-
-
77949889825
-
Multiscale modeling of structural dynamics underlying force generation and product release in actomyosin complex
-
Zheng W. Multiscale modeling of structural dynamics underlying force generation and product release in actomyosin complex. Proteins 2010; 78: 638-660.
-
(2010)
Proteins
, vol.78
, pp. 638-660
-
-
Zheng, W.1
-
45
-
-
79551615831
-
Decrypting the sequence of structural events during the gating transition of pentameric ligand-gated ion channels based on an interpolated elastic network model
-
Zheng W, Auerbach A. Decrypting the sequence of structural events during the gating transition of pentameric ligand-gated ion channels based on an interpolated elastic network model. PLoS Comput Biol 2011; 7: e1001046.
-
(2011)
PLoS Comput Biol
, vol.7
-
-
Zheng, W.1
Auerbach, A.2
-
46
-
-
79958770374
-
Coarse-grained modeling of conformational transitions underlying the processive stepping of myosin V dimer along filamentous actin
-
Zheng W. Coarse-grained modeling of conformational transitions underlying the processive stepping of myosin V dimer along filamentous actin. Proteins 2011; 79: 2291-2305.
-
(2011)
Proteins
, vol.79
, pp. 2291-2305
-
-
Zheng, W.1
-
47
-
-
84860176470
-
Coarse-grained modeling of the structural states and transition underlying the powerstroke of dynein motor domain
-
Zheng W. Coarse-grained modeling of the structural states and transition underlying the powerstroke of dynein motor domain. J Chem Phys 2012; 136: 155103.
-
(2012)
J Chem Phys
, vol.136
, pp. 155103
-
-
Zheng, W.1
-
48
-
-
17844411211
-
Normal-modes-based prediction of protein conformational changes guided by distance constraints
-
Zheng W, Brooks BR. Normal-modes-based prediction of protein conformational changes guided by distance constraints. Biophys J 2005; 88: 3109-3117.
-
(2005)
Biophys J
, vol.88
, pp. 3109-3117
-
-
Zheng, W.1
Brooks, B.R.2
-
49
-
-
33744811942
-
Modeling protein conformational changes by iterative fitting of distance constraints using reoriented normal modes
-
Zheng W, Brooks BR. Modeling protein conformational changes by iterative fitting of distance constraints using reoriented normal modes. Biophys J 2006; 90: 4327-4336.
-
(2006)
Biophys J
, vol.90
, pp. 4327-4336
-
-
Zheng, W.1
Brooks, B.R.2
-
50
-
-
4344716056
-
Normal mode based flexible fitting of high-resolution structure into low-resolution experimental data from cryo-EM
-
Tama F, Miyashita O, Brooks CL, III. Normal mode based flexible fitting of high-resolution structure into low-resolution experimental data from cryo-EM. J Struct Biol 2004; 147: 315-326.
-
(2004)
J Struct Biol
, vol.147
, pp. 315-326
-
-
Tama, F.1
Miyashita, O.2
Brooks III, C.L.3
-
51
-
-
78751682350
-
Accurate flexible fitting of high-resolution protein structures into cryo-electron microscopy maps using coarse-grained pseudo-energy minimization
-
Zheng W. Accurate flexible fitting of high-resolution protein structures into cryo-electron microscopy maps using coarse-grained pseudo-energy minimization. Biophys J 2011; 100: 478-488.
-
(2011)
Biophys J
, vol.100
, pp. 478-488
-
-
Zheng, W.1
-
52
-
-
84055217520
-
Accurate flexible fitting of high-resolution protein structures to small-angle x-ray scattering data using a coarse-grained model with implicit hydration shell
-
Zheng W, Tekpinar M. Accurate flexible fitting of high-resolution protein structures to small-angle x-ray scattering data using a coarse-grained model with implicit hydration shell. Biophys J 2011; 101: 2981-2991.
-
(2011)
Biophys J
, vol.101
, pp. 2981-2991
-
-
Zheng, W.1
Tekpinar, M.2
-
53
-
-
79955469012
-
WAXS studies of the structural diversity of hemoglobin in solution
-
Makowski L, Bardhan J, Gore D, Lal J, Mandava S, Park S, Rodi DJ, Ho NT, Ho C, Fischetti RF. WAXS studies of the structural diversity of hemoglobin in solution. J Mol Biol 2011; 408: 909-921.
-
(2011)
J Mol Biol
, vol.408
, pp. 909-921
-
-
Makowski, L.1
Bardhan, J.2
Gore, D.3
Lal, J.4
Mandava, S.5
Park, S.6
Rodi, D.J.7
Ho, N.T.8
Ho, C.9
Fischetti, R.F.10
-
54
-
-
64549083267
-
Simulated x-ray scattering of protein solutions using explicit-solvent models
-
Park S, Bardhan JP, Roux B, Makowski L. Simulated x-ray scattering of protein solutions using explicit-solvent models. J Chem Phys 2009; 130: 134114.
-
(2009)
J Chem Phys
, vol.130
, pp. 134114
-
-
Park, S.1
Bardhan, J.P.2
Roux, B.3
Makowski, L.4
-
55
-
-
3142716857
-
Accelerated molecular dynamics: a promising and efficient simulation method for biomolecules
-
Hamelberg D, Mongan J, McCammon JA. Accelerated molecular dynamics: a promising and efficient simulation method for biomolecules. J Chem Phys 2004; 120: 11919-11929.
-
(2004)
J Chem Phys
, vol.120
, pp. 11919-11929
-
-
Hamelberg, D.1
Mongan, J.2
McCammon, J.A.3
-
56
-
-
0141792364
-
Allosteric changes in protein structure computed by a simple mechanical model: hemoglobin T<-->R2 transition
-
Xu C, Tobi D, Bahar I. Allosteric changes in protein structure computed by a simple mechanical model: hemoglobin T<-->R2 transition. J Mol Biol 2003; 333: 153-168.
-
(2003)
J Mol Biol
, vol.333
, pp. 153-168
-
-
Xu, C.1
Tobi, D.2
Bahar, I.3
-
58
-
-
17044427535
-
Network of dynamically important residues in the open/closed transition in polymerases is strongly conserved
-
Zheng W, Brooks BR, Doniach S, Thirumalai D. Network of dynamically important residues in the open/closed transition in polymerases is strongly conserved. Structure 2005; 13: 565-577.
-
(2005)
Structure
, vol.13
, pp. 565-577
-
-
Zheng, W.1
Brooks, B.R.2
Doniach, S.3
Thirumalai, D.4
-
59
-
-
34250178787
-
A comparative NMR study of the polypeptide backbone dynamics of hemoglobin in the deoxy and carbonmonoxy forms
-
Song XJ, Yuan Y, Simplaceanu V, Sahu SC, Ho NT, Ho C. A comparative NMR study of the polypeptide backbone dynamics of hemoglobin in the deoxy and carbonmonoxy forms. Biochemistry 2007; 46: 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
-
60
-
-
0014958178
-
Inhibition of Bohr effect after removal of C-terminal histidines from haemoglobin beta-chains
-
Kilmartin JV, Wootton JF. Inhibition of Bohr effect after removal of C-terminal histidines from haemoglobin beta-chains. Nature 1970; 228: 766-767.
-
(1970)
Nature
, vol.228
, pp. 766-767
-
-
Kilmartin, J.V.1
Wootton, J.F.2
-
61
-
-
0039955115
-
Studies on carboxypeptidase digests of human hemoglobin
-
Antonini E, Wyman J, Zito R, Rossi-Fanelli A, Caputo A. Studies on carboxypeptidase digests of human hemoglobin. J Biol Chem 1961; 236: PC60-PC63.
-
(1961)
J Biol Chem
, vol.236
-
-
Antonini, E.1
Wyman, J.2
Zito, R.3
Rossi-Fanelli, A.4
Caputo, A.5
-
62
-
-
0028916221
-
Structure and oxygen affinity of crystalline desArg141 alpha human hemoglobin A in the T state
-
Kavanaugh JS, Chafin DR, Arnone A, Mozzarelli A, Rivetti C, Rossi GL, Kwiatkowski LD, Noble RW. Structure and oxygen affinity of crystalline desArg141 alpha human hemoglobin A in the T state. J Mol Biol 1995; 248: 136-150.
-
(1995)
J Mol Biol
, vol.248
, pp. 136-150
-
-
Kavanaugh, J.S.1
Chafin, D.R.2
Arnone, A.3
Mozzarelli, A.4
Rivetti, C.5
Rossi, G.L.6
Kwiatkowski, L.D.7
Noble, R.W.8
-
63
-
-
0031453247
-
Structure and oxygen affinity of crystalline des-his-146beta human hemoglobin in the T state
-
Bettati S, Kwiatkowski LD, Kavanaugh JS, Mozzarelli A, Arnone A, Rossi GL, Noble RW. Structure and oxygen affinity of crystalline des-his-146beta human hemoglobin in the T state. J Biol Chem 1997; 272: 33077-33084.
-
(1997)
J Biol Chem
, vol.272
, pp. 33077-33084
-
-
Bettati, S.1
Kwiatkowski, L.D.2
Kavanaugh, J.S.3
Mozzarelli, A.4
Arnone, A.5
Rossi, G.L.6
Noble, R.W.7
-
64
-
-
0035900002
-
Mutational effects at the subunit interfaces of human hemoglobin: evidence for a unique sensitivity of the T quaternary state to changes in the hinge region of the alpha 1 beta 2 interface
-
Noble RW, Hui HL, Kwiatkowski LD, Paily P, DeYoung A, Wierzba A, Colby JE, Bruno S, Mozzarelli A. Mutational effects at the subunit interfaces of human hemoglobin: evidence for a unique sensitivity of the T quaternary state to changes in the hinge region of the alpha 1 beta 2 interface. Biochemistry 2001; 40: 12357-12368.
-
(2001)
Biochemistry
, vol.40
, pp. 12357-12368
-
-
Noble, R.W.1
Hui, H.L.2
Kwiatkowski, L.D.3
Paily, P.4
DeYoung, A.5
Wierzba, A.6
Colby, J.E.7
Bruno, S.8
Mozzarelli, A.9
-
65
-
-
0037197658
-
Effects of amino acid substitutions at beta 131 on the structure and properties of hemoglobin: evidence for communication between alpha 1 beta 1- and alpha 1 beta 2-subunit interfaces
-
Chang CK, Simplaceanu V, Ho C. Effects of amino acid substitutions at beta 131 on the structure and properties of hemoglobin: evidence for communication between alpha 1 beta 1- and alpha 1 beta 2-subunit interfaces. Biochemistry 2002; 41: 5644-5655.
-
(2002)
Biochemistry
, vol.41
, pp. 5644-5655
-
-
Chang, C.K.1
Simplaceanu, V.2
Ho, C.3
-
66
-
-
3042521090
-
Time-resolved absorption and UV resonance Raman spectra reveal stepwise formation of T quaternary contacts in the allosteric pathway of hemoglobin
-
Balakrishnan G, Case MA, Pevsner A, Zhao X, Tengroth C, McLendon GL, Spiro TG. Time-resolved absorption and UV resonance Raman spectra reveal stepwise formation of T quaternary contacts in the allosteric pathway of hemoglobin. J Mol Biol 2004; 340: 843-856.
-
(2004)
J Mol Biol
, vol.340
, pp. 843-856
-
-
Balakrishnan, G.1
Case, M.A.2
Pevsner, A.3
Zhao, X.4
Tengroth, C.5
McLendon, G.L.6
Spiro, T.G.7
-
67
-
-
53149126899
-
Protein dynamics explain the allosteric behaviors of hemoglobin
-
Yonetani T, Laberge M. Protein dynamics explain the allosteric behaviors of hemoglobin. Biochim Biophys Acta 2008; 1784: 1146-1158.
-
(2008)
Biochim Biophys Acta
, vol.1784
, pp. 1146-1158
-
-
Yonetani, T.1
Laberge, M.2
-
68
-
-
0027498175
-
The quaternary structure of carbonmonoxy hemoglobin ypsilanti
-
Janin J, Wodak SJ. The quaternary structure of carbonmonoxy hemoglobin ypsilanti. Proteins 1993; 15: 1-4.
-
(1993)
Proteins
, vol.15
, pp. 1-4
-
-
Janin, J.1
Wodak, S.J.2
-
69
-
-
0027988868
-
The T-to-R transformation in hemoglobin: a reevaluation
-
Srinivasan R, Rose GD. The T-to-R transformation in hemoglobin: a reevaluation. Proc Natl Acad Sci USA 1994; 91: 11113-11117.
-
(1994)
Proc Natl Acad Sci USA
, vol.91
, pp. 11113-11117
-
-
Srinivasan, R.1
Rose, G.D.2
-
70
-
-
0030838618
-
Allosteric intermediates indicate R2 is the liganded hemoglobin end state
-
Schumacher MA, Zheleznova EE, Poundstone KS, Kluger R, Jones RT, Brennan RG. Allosteric intermediates indicate R2 is the liganded hemoglobin end state. Proc Natl Acad Sci USA 1997; 94: 7841-7844.
-
(1997)
Proc Natl Acad Sci USA
, vol.94
, pp. 7841-7844
-
-
Schumacher, M.A.1
Zheleznova, E.E.2
Poundstone, K.S.3
Kluger, R.4
Jones, R.T.5
Brennan, R.G.6
-
71
-
-
0025801633
-
Crystals of haemoglobin with the T quaternary structure bind oxygen noncooperatively with no Bohr effect
-
Mozzarelli A, Rivetti C, Rossi GL, Henry ER, Eaton WA. Crystals of haemoglobin with the T quaternary structure bind oxygen noncooperatively with no Bohr effect. Nature 1991; 351: 416-419.
-
(1991)
Nature
, vol.351
, pp. 416-419
-
-
Mozzarelli, A.1
Rivetti, C.2
Rossi, G.L.3
Henry, E.R.4
Eaton, W.A.5
-
72
-
-
0030000410
-
Crystal structure of T state haemoglobin with oxygen bound at all four haems
-
Paoli M, Liddington R, Tame J, Wilkinson A, Dodson G. Crystal structure of T state haemoglobin with oxygen bound at all four haems. J Mol Biol 1996; 256: 775-792.
-
(1996)
J Mol Biol
, vol.256
, pp. 775-792
-
-
Paoli, M.1
Liddington, R.2
Tame, J.3
Wilkinson, A.4
Dodson, G.5
-
73
-
-
0026620795
-
High resolution crystal structures and comparisons of T-state deoxyhaemoglobin and two liganded T-state haemoglobins: T(alpha-oxy)haemoglobin and T(met)haemoglobin
-
Liddington R, Derewenda Z, Dodson E, Hubbard R, Dodson G. High resolution crystal structures and comparisons of T-state deoxyhaemoglobin and two liganded T-state haemoglobins: T(alpha-oxy)haemoglobin and T(met)haemoglobin. J Mol Biol 1992; 228: 551-579.
-
(1992)
J Mol Biol
, vol.228
, pp. 551-579
-
-
Liddington, R.1
Derewenda, Z.2
Dodson, E.3
Hubbard, R.4
Dodson, G.5
-
74
-
-
0027490333
-
Structural heterogeneity of the Fe(2+)-N epsilon (HisF8) bond in various hemoglobin and myoglobin derivatives probed by the Raman-active iron histidine stretching mode
-
Gilch H, Schweitzer-Stenner R, Dreybrodt W. Structural heterogeneity of the Fe(2+)-N epsilon (HisF8) bond in various hemoglobin and myoglobin derivatives probed by the Raman-active iron histidine stretching mode. Biophys J 1993; 65: 1470-1485.
-
(1993)
Biophys J
, vol.65
, pp. 1470-1485
-
-
Gilch, H.1
Schweitzer-Stenner, R.2
Dreybrodt, W.3
-
75
-
-
0038472361
-
Direct observation of photolysis-induced tertiary structural changes in hemoglobin
-
Adachi S, Park SY, Tame JR, Shiro Y, Shibayama N. Direct observation of photolysis-induced tertiary structural changes in hemoglobin. Proc Natl Acad Sci USA 2003; 100: 7039-7044.
-
(2003)
Proc Natl Acad Sci USA
, vol.100
, pp. 7039-7044
-
-
Adachi, S.1
Park, S.Y.2
Tame, J.R.3
Shiro, Y.4
Shibayama, N.5
-
76
-
-
0030582681
-
The crystal structure of horse deoxyhaemoglobin trapped in the high-affinity (R) state
-
Wilson J, Phillips K, Luisi B. The crystal structure of horse deoxyhaemoglobin trapped in the high-affinity (R) state. J Mol Biol 1996; 264: 743-756.
-
(1996)
J Mol Biol
, vol.264
, pp. 743-756
-
-
Wilson, J.1
Phillips, K.2
Luisi, B.3
-
77
-
-
0023244066
-
The dissociation of carbon monoxide from hemoglobin intermediate
-
Samaja M, Rovida E, Niggeler M, Perrella M, Rossi-Bernardi L. The dissociation of carbon monoxide from hemoglobin intermediate. J Biol Chem 1987; 262: 4528-4533.
-
(1987)
J Biol Chem
, vol.262
, pp. 4528-4533
-
-
Samaja, M.1
Rovida, E.2
Niggeler, M.3
Perrella, M.4
Rossi-Bernardi, L.5
-
78
-
-
0037072945
-
Global allostery model of hemoglobin. Modulation of O(2) affinity, cooperativity, and Bohr effect by heterotropic allosteric effectors
-
Yonetani T, Park SI, Tsuneshige A, Imai K, Kanaori K. Global allostery model of hemoglobin. Modulation of O(2) affinity, cooperativity, and Bohr effect by heterotropic allosteric effectors. J Biol Chem 2002; 277: 34508-34520.
-
(2002)
J Biol Chem
, vol.277
, pp. 34508-34520
-
-
Yonetani, T.1
Park, S.I.2
Tsuneshige, A.3
Imai, K.4
Kanaori, K.5
|