-
1
-
-
0025280401
-
Structural studies of protein-nucleic acid interaction: The source of sequence-specific binding
-
Steitz, T.A. Structural studies of protein-nucleic acid interaction: The source of sequence-specific binding. Quart. Rev. Biophys. 23:205-280, 1990.
-
(1990)
Quart. Rev. Biophys.
, vol.23
, pp. 205-280
-
-
Steitz, T.A.1
-
2
-
-
0026682657
-
Transcription factors: Structural families and principles of DNA recognition
-
Pabo, C.O., Sauer, R.T. Transcription factors: Structural families and principles of DNA recognition. Ann. Rev. Biochem. 61:1053-1095, 1992.
-
(1992)
Ann. Rev. Biochem.
, vol.61
, pp. 1053-1095
-
-
Pabo, C.O.1
Sauer, R.T.2
-
4
-
-
0141630791
-
On the specificity of DNA-protein interactions
-
Von Hippel, P.H., Berg, O.G. On the specificity of DNA-protein interactions. Proc. Natl. Acad. Sci. USA 83: 1608-1612, 1986.
-
(1986)
Proc. Natl. Acad. Sci. USA
, vol.83
, pp. 1608-1612
-
-
Von Hippel, P.H.1
Berg, O.G.2
-
5
-
-
0027216519
-
The nonspecific DNA-binding and -bending proteins HMG1 and HMG2 promote the assembly of complex nucleoprotein structures
-
Paull, T.T., Haykinson, M.J., Johnson, R.C. The nonspecific DNA-binding and -bending proteins HMG1 and HMG2 promote the assembly of complex nucleoprotein structures. Genes Dev. 7: 1521-1534, 1993.
-
(1993)
Genes Dev.
, vol.7
, pp. 1521-1534
-
-
Paull, T.T.1
Haykinson, M.J.2
Johnson, R.C.3
-
6
-
-
0028950413
-
HMG-D is an architecture-specific protein that preferentially binds to DNA containing the dinucleotide TG
-
Churchill, M.E.A., Jones, D.N.M., Glaser, T., Hefner, H., Searles, M.A., Travers, A.A. HMG-D is an architecture-specific protein that preferentially binds to DNA containing the dinucleotide TG. EMBO J. 14:101-112, 1995.
-
(1995)
EMBO J.
, vol.14
, pp. 101-112
-
-
Churchill, M.E.A.1
Jones, D.N.M.2
Glaser, T.3
Hefner, H.4
Searles, M.A.5
Travers, A.A.6
-
7
-
-
0029563931
-
Structure of the A-domain of HMG1 and its interactions with DNA as studied by heteronuclear three- and four-dimensional NMR spectroscopy
-
Hardman, C.H., Broadhurst, R.W., Raine, A.R.C., Grasser, K.D., Thomas, J.O., Laue, E.D. Structure of the A-domain of HMG1 and its interactions with DNA as studied by heteronuclear three-and four-dimensional NMR spectroscopy. Biochemistry 34:16596-16607, 1995.
-
(1995)
Biochemistry
, vol.34
, pp. 16596-16607
-
-
Hardman, C.H.1
Broadhurst, R.W.2
Raine, A.R.C.3
Grasser, K.D.4
Thomas, J.O.5
Laue, E.D.6
-
8
-
-
0030358586
-
High-Mobility-Group chromosomal proteins: Architectural components that facilitate chromatin function
-
Bustin, M., Reeves, R. High-Mobility-Group chromosomal proteins: Architectural components that facilitate chromatin function. Prog. Nucleic Acid Res. Mol. Biol. 54:35-100, 1996.
-
(1996)
Prog. Nucleic Acid Res. Mol. Biol.
, vol.54
, pp. 35-100
-
-
Bustin, M.1
Reeves, R.2
-
9
-
-
0026609275
-
The DNA binding site of HMG1 protein is composed of two similar segments (HMG boxes), both of which have counterparts in other eukaryotic regulatory proteins
-
Bianchi, M.E., Falciola, L., Ferrari, S., Lilley, M.D.J. The DNA binding site of HMG1 protein is composed of two similar segments (HMG boxes), both of which have counterparts in other eukaryotic regulatory proteins. EMBO J. 11:1055-1063, 1992.
-
(1992)
EMBO J.
, vol.11
, pp. 1055-1063
-
-
Bianchi, M.E.1
Falciola, L.2
Ferrari, S.3
Lilley, M.D.J.4
-
10
-
-
0000113329
-
DNA-binding proteins HMGs everywhere
-
Ner, S.S. DNA-binding proteins HMGs everywhere. Curr. Biol. 2:208-210, 1992.
-
(1992)
Curr. Biol.
, vol.2
, pp. 208-210
-
-
Ner, S.S.1
-
11
-
-
0026704583
-
A high-mobility-group protein and its cDNAs from Drosophila melanogaster
-
Wagner, C.R., Hamana, K., Elgin, S.C.R. A high-mobility-group protein and its cDNAs from Drosophila melanogaster. Mol. Cell. Biol. 12:1915-1923, 1992.
-
(1992)
Mol. Cell. Biol.
, vol.12
, pp. 1915-1923
-
-
Wagner, C.R.1
Hamana, K.2
Elgin, S.C.R.3
-
12
-
-
0028211484
-
HMG-D, the Drosophila melanogaster homologue of HMG 1 protein, is associated with early embryonic chromatin in the absence of histone H1
-
Ner, S.S., Travers, A.A. HMG-D, the Drosophila melanogaster homologue of HMG 1 protein, is associated with early embryonic chromatin in the absence of histone H1. EMBO J. 13:1817-1822, 1994.
-
(1994)
EMBO J.
, vol.13
, pp. 1817-1822
-
-
Ner, S.S.1
Travers, A.A.2
-
13
-
-
0029070956
-
The HMG-1 box protein family: Classification and functional relationships
-
Baxevanis, A.D., Landsman, D. The HMG-1 box protein family: Classification and functional relationships. Nucl. Acids Res. 23:1604-1613, 1995.
-
(1995)
Nucl. Acids Res.
, vol.23
, pp. 1604-1613
-
-
Baxevanis, A.D.1
Landsman, D.2
-
14
-
-
0028226799
-
DNA chaper ones: A solution to a persistence problem?
-
Travers, A.A., Ner, S.S., Churchill, M.E.A. DNA chaper ones: A solution to a persistence problem? Cell 77:167-169, 1994.
-
(1994)
Cell
, vol.77
, pp. 167-169
-
-
Travers, A.A.1
Ner, S.S.2
Churchill, M.E.A.3
-
15
-
-
0001236368
-
The structure of the HMG box and its interactions with DNA
-
Ekstein, F., Lilley, D.M.J. (eds.). Berlin: Springer-Verlag
-
Read, C.M., Cary, P.D., Crane-Robinson, C., Driscoll, P.C., Carillo, M.O.M., Norman, D.G. The structure of the HMG box and its interactions with DNA. In: "Nucleic Acids and Molecular Biology." Ekstein, F., Lilley, D.M.J. (eds.). Berlin: Springer-Verlag, 1995:222-250.
-
(1995)
Nucleic Acids and Molecular Biology
, pp. 222-250
-
-
Read, C.M.1
Cary, P.D.2
Crane-Robinson, C.3
Driscoll, P.C.4
Carillo, M.O.M.5
Norman, D.G.6
-
16
-
-
0029790690
-
Differential association of HMG1 and linker histones B4 and H1 with dinucleosomal DNA-structural transitions and transcriptional repression
-
Ura, K., Nightingale, K., Wolffe, A. Differential association of HMG1 and linker histones B4 and H1 with dinucleosomal DNA-structural transitions and transcriptional repression. EMBO J. 15:4959-4969, 1996.
-
(1996)
EMBO J.
, vol.15
, pp. 4959-4969
-
-
Ura, K.1
Nightingale, K.2
Wolffe, A.3
-
17
-
-
0028303884
-
The high mobility group protein HMG1 can reversibly inhibit class II gene transcription by interaction with the TATA-binding protein
-
Ge, H., Roeder, R.G. The high mobility group protein HMG1 can reversibly inhibit class II gene transcription by interaction with the TATA-binding protein. J. Biol. Chem. 269:17136-17140, 1994.
-
(1994)
J. Biol. Chem.
, vol.269
, pp. 17136-17140
-
-
Ge, H.1
Roeder, R.G.2
-
18
-
-
0029811475
-
HMG1 interacts with HOX proteins and enhances their DNA binding and transcriptional activation
-
Zappavigna, V., Falciola, L., Citterich, M.H., Mavillo, F., Bianchi, M.E. HMG1 interacts with HOX proteins and enhances their DNA binding and transcriptional activation. EMBO J. 15:4981-4991, 1996.
-
(1996)
EMBO J.
, vol.15
, pp. 4981-4991
-
-
Zappavigna, V.1
Falciola, L.2
Citterich, M.H.3
Mavillo, F.4
Bianchi, M.E.5
-
19
-
-
0028197368
-
HMG domain proteins: Architectural elements in the assembly of nucleoprotein structures
-
Grosschedl, R., Giese, K., Pagel, J. HMG domain proteins: Architectural elements in the assembly of nucleoprotein structures. Trends Genet. 10:94-100, 1994.
-
(1994)
Trends Genet.
, vol.10
, pp. 94-100
-
-
Grosschedl, R.1
Giese, K.2
Pagel, J.3
-
20
-
-
0026509548
-
DNA-binding activity of recombinant SRY from normal males and XY females
-
Harley, V.R., Jackson, D.L, Hextall, P.J., Hawkins, J.R., Berkovitz, G.D., Sockanathan, S., Lovell-Badge, R., Goodfellow, P.N. DNA-binding activity of recombinant SRY from normal males and XY females. Science 255:453-456, 1992.
-
(1992)
Science
, vol.255
, pp. 453-456
-
-
Harley, V.R.1
Jackson, D.L.2
Hextall, P.J.3
Hawkins, J.R.4
Berkovitz, G.D.5
Sockanathan, S.6
Lovell-Badge, R.7
Goodfellow, P.N.8
-
21
-
-
0026264203
-
DNA-binding properties of the HMG domain of the lymphoid-specific transcriptional regulator LEF-1
-
Giese, K., Amsterdam, A., Grosschedl, R. DNA-binding properties of the HMG domain of the lymphoid-specific transcriptional regulator LEF-1. Genes Dev. 5:2567-2578, 1991.
-
(1991)
Genes Dev.
, vol.5
, pp. 2567-2578
-
-
Giese, K.1
Amsterdam, A.2
Grosschedl, R.3
-
22
-
-
0028355759
-
Mutational analysis of the DNA binding domain a of chromosomal protein HMG1
-
Falciola, L., Murchie, A.I.H., Lilley, D.M.J., Bianchi, M.E. Mutational analysis of the DNA binding domain A of chromosomal protein HMG1. Nucl. Acids Res. 22:285-292, 1994.
-
(1994)
Nucl. Acids Res.
, vol.22
, pp. 285-292
-
-
Falciola, L.1
Murchie, A.I.H.2
Lilley, D.M.J.3
Bianchi, M.E.4
-
23
-
-
0028580157
-
Sex-reversing mutations affect the architecture of SRY-DNA complexes
-
Pontiggia, A., Rimini, R., Harley, V.R., Goodfellow, P.N., Lovell-Badge, R.L., Bianchi, M.E. Sex-reversing mutations affect the architecture of SRY-DNA complexes. EMBO J. 13:6115-6124, 1994.
-
(1994)
EMBO J.
, vol.13
, pp. 6115-6124
-
-
Pontiggia, A.1
Rimini, R.2
Harley, V.R.3
Goodfellow, P.N.4
Lovell-Badge, R.L.5
Bianchi, M.E.6
-
24
-
-
0026439782
-
SRY, like HMG1, recognizes sharp angles in DNA
-
Ferrari, S., Harley, V.R., Pontiggia, A., Goodfellow, P.N., Lovell-Badge, R., Bianchi, M.E. SRY, like HMG1, recognizes sharp angles in DNA. EMBO J. 11:4497-4506, 1992.
-
(1992)
EMBO J.
, vol.11
, pp. 4497-4506
-
-
Ferrari, S.1
Harley, V.R.2
Pontiggia, A.3
Goodfellow, P.N.4
Lovell-Badge, R.5
Bianchi, M.E.6
-
25
-
-
0028227965
-
Cisplatin-DNA adducts are molecular decoys for the ribosomal RNA transcription factor hUBF (human upstream binding factor)
-
Treiber, D.K., Zhai, X., Jantzen, H.-M., Essigman, J.M. Cisplatin-DNA adducts are molecular decoys for the ribosomal RNA transcription factor hUBF (human upstream binding factor). Proc. Natl. Acad. Sci. USA 91:5672-5676, 1994.
-
(1994)
Proc. Natl. Acad. Sci. USA
, vol.91
, pp. 5672-5676
-
-
Treiber, D.K.1
Zhai, X.2
Jantzen, H.-M.3
Essigman, J.M.4
-
26
-
-
0027248881
-
Ixrl, a yeast protein that binds to platinated DNA and confers sensitivity to cisplatin
-
Brown, S.J., Kellett, P.J., Lippard, S.J. Ixrl, a yeast protein that binds to platinated DNA and confers sensitivity to cisplatin. Science 261:603-605, 1993.
-
(1993)
Science
, vol.261
, pp. 603-605
-
-
Brown, S.J.1
Kellett, P.J.2
Lippard, S.J.3
-
27
-
-
0029278806
-
Modifying the helical structure of DNA by design: Recruitment of an architecture-specific protein to an enforced DNA bend
-
Wolfe, S.A., Ferentz, A.E., Grantcharova, V., Churchill, M.E.A., Verdine, G.L. Modifying the helical structure of DNA by design: Recruitment of an architecture-specific protein to an enforced DNA bend. Chem. Biol. 2:213-221, 1995.
-
(1995)
Chem. Biol.
, vol.2
, pp. 213-221
-
-
Wolfe, S.A.1
Ferentz, A.E.2
Grantcharova, V.3
Churchill, M.E.A.4
Verdine, G.L.5
-
28
-
-
0028609494
-
HMG domain proteins induce sharp bends in cisplatin-modified DNA
-
Chow, C.S., Whitehead, J.P., Lippard, S.J. HMG domain proteins induce sharp bends in cisplatin-modified DNA. Biochemistry 33:15124-15130, 1994.
-
(1994)
Biochemistry
, vol.33
, pp. 15124-15130
-
-
Chow, C.S.1
Whitehead, J.P.2
Lippard, S.J.3
-
29
-
-
0026643104
-
The HMG box of lymphoid enhancer factor 1 bends DNA and facilitates assembly of functional nucleoprotein structures
-
Giese, K., Cox, J., Grosschedl, R. The HMG box of lymphoid enhancer factor 1 bends DNA and facilitates assembly of functional nucleoprotein structures. Cell 69:185-195, 1992.
-
(1992)
Cell
, vol.69
, pp. 185-195
-
-
Giese, K.1
Cox, J.2
Grosschedl, R.3
-
30
-
-
0027414641
-
Structure of the HMG box motif in the B-domain of HMG1
-
Weir, H.M., Kraulis, P.J., Hill, C.S., Raine, A.R.C., Laue, E.D., Thomas, J.O. Structure of the HMG box motif in the B-domain of HMG1. EMBO J. 12:1311-1319, 1993.
-
(1993)
EMBO J.
, vol.12
, pp. 1311-1319
-
-
Weir, H.M.1
Kraulis, P.J.2
Hill, C.S.3
Raine, A.R.C.4
Laue, E.D.5
Thomas, J.O.6
-
31
-
-
0027268618
-
Solution structure of a DNA-binding domain from HMG1
-
Read, C.M., Cary, P.D., Crane-Robinson, C., Driscoll, P.C., Norman, D.G. Solution structure of a DNA-binding domain from HMG1. Nucl. Acids Res. 21:3427-3436, 1993.
-
(1993)
Nucl. Acids Res.
, vol.21
, pp. 3427-3436
-
-
Read, C.M.1
Cary, P.D.2
Crane-Robinson, C.3
Driscoll, P.C.4
Norman, D.G.5
-
32
-
-
0028773902
-
The solution structure and dynamics of the DNA-binding domain of HMG-D from Drosophila melanogaster
-
Jones, D.N.M., Searles, M.A., Shaw, G.L., Churchill, M.E.A., Ner, S.S., Keeler, J., Travers, A.A., Neuhaus, D. The solution structure and dynamics of the DNA-binding domain of HMG-D from Drosophila melanogaster. Structure 2:609-627, 1994.
-
(1994)
Structure
, vol.2
, pp. 609-627
-
-
Jones, D.N.M.1
Searles, M.A.2
Shaw, G.L.3
Churchill, M.E.A.4
Ner, S.S.5
Keeler, J.6
Travers, A.A.7
Neuhaus, D.8
-
33
-
-
0029584667
-
Solution structure of the sequence-specific HMG box of the lymphocyte transcriptional activator Sox-4
-
Van Houte, L.P.A., Chuprina, V.P., van de Wetering, M., Boelens, R., Kaptein, R., Clevers, H. Solution structure of the sequence-specific HMG box of the lymphocyte transcriptional activator Sox-4. J. Biol. Chem. 270:30516-30524, 1995.
-
(1995)
J. Biol. Chem.
, vol.270
, pp. 30516-30524
-
-
Van Houte, L.P.A.1
Chuprina, V.P.2
Van De Wetering, M.3
Boelens, R.4
Kaptein, R.5
Clevers, H.6
-
34
-
-
0029131298
-
Structural basis for DNA bending by the architectural transcription factor LEF-1
-
Love, J.J., Li, X., Case, D.A., Giese, K., Grosschedl, R., Wright, P.E. Structural basis for DNA bending by the architectural transcription factor LEF-1. Nature 376:791-795, 1995.
-
(1995)
Nature
, vol.376
, pp. 791-795
-
-
Love, J.J.1
Li, X.2
Case, D.A.3
Giese, K.4
Grosschedl, R.5
Wright, P.E.6
-
35
-
-
0029075461
-
Molecular basis of human 46X,Y sex reversal revealed from the three-dimensional solution structure of the human SRY-DNA complex
-
Werner, M.H., Huth, J.R., Gronenborn, A.M., Clore, G.M. Molecular basis of human 46X,Y sex reversal revealed from the three-dimensional solution structure of the human SRY-DNA complex. Cell 81:705-714, 1995.
-
(1995)
Cell
, vol.81
, pp. 705-714
-
-
Werner, M.H.1
Huth, J.R.2
Gronenborn, A.M.3
Clore, G.M.4
-
36
-
-
0026696874
-
Sequence-specific interaction of the HMG box domain proteins TCF-1 and SRY within the minor groove of a Watson-Crick double helix
-
Van de Wetering, M., Clevers, H. Sequence-specific interaction of the HMG box domain proteins TCF-1 and SRY within the minor groove of a Watson-Crick double helix. EMBO J. 11:3039-3044, 1992.
-
(1992)
EMBO J.
, vol.11
, pp. 3039-3044
-
-
Van De Wetering, M.1
Clevers, H.2
-
37
-
-
0027142992
-
The SRY high-mobility-group box recognizes DNA by partial intercalation in the minor groove: A topological mechanism of sequence specificity
-
King, C.-Y., Weiss, M.A. The SRY high-mobility-group box recognizes DNA by partial intercalation in the minor groove: A topological mechanism of sequence specificity. Proc. Natl. Acad. Sci. USA 90:11990-11994, 1993.
-
(1993)
Proc. Natl. Acad. Sci. USA
, vol.90
, pp. 11990-11994
-
-
King, C.-Y.1
Weiss, M.A.2
-
38
-
-
0030046809
-
Intercalation, DNA kinking, and the control of transcription
-
Werner, M.H., Gronenborn, A.M., Clore, G.M. Intercalation, DNA kinking, and the control of transcription. Science 271:778-784, 1996.
-
(1996)
Science
, vol.271
, pp. 778-784
-
-
Werner, M.H.1
Gronenborn, A.M.2
Clore, G.M.3
-
39
-
-
0004273321
-
-
New York: John Wiley & Sons
-
Brooks C.L. III, Karplus, M., Pettitt, B.M. "Advances in Chemical Physics, Vol. LXXI." New York: John Wiley & Sons, 1988.
-
(1988)
Advances in Chemical Physics
, vol.71
-
-
Brooks III, C.L.1
Karplus, M.2
Pettitt, B.M.3
-
41
-
-
0029000691
-
Methodological advances in molecular dynamics simulations of biological systems
-
Brooks C.L. III, Methodological advances in molecular dynamics simulations of biological systems. Curr. Opin. Struct. Biol. 5:211-215, 1995.
-
(1995)
Curr. Opin. Struct. Biol.
, vol.5
, pp. 211-215
-
-
Brooks III, C.L.1
-
42
-
-
0024450549
-
An NMR-based molecular dynamics simulation of the interaction of the lac repressor headpiece and its operator in aqueous solution
-
De Vlieg, J., Berendsen, H.J.C., van Gunsteren, W.F. An NMR-based molecular dynamics simulation of the interaction of the lac repressor headpiece and its operator in aqueous solution. Proteins 6:104-127, 1989.
-
(1989)
Proteins
, vol.6
, pp. 104-127
-
-
De Vlieg, J.1
Berendsen, H.J.C.2
Van Gunsteren, W.F.3
-
43
-
-
0028814905
-
Molecular dynamics simulations of the glucocorticoid receptor DNA-binding domain in complex with DNA and free in solution
-
Eriksson, M.A.L., Hiird, T., Nilsson, L. Molecular dynamics simulations of the glucocorticoid receptor DNA-binding domain in complex with DNA and free in solution. Biophys. J. 68:402-426, 1995.
-
(1995)
Biophys. J.
, vol.68
, pp. 402-426
-
-
Eriksson, M.A.L.1
Hiird, T.2
Nilsson, L.3
-
44
-
-
0028061636
-
Molecular dynamics simulations in solvent of the glucocorticoid receptor protein in complex with a glucocorticoid response element DNA sequence
-
Harris, L.F., Sullivan, M.R., Popken-Harris, P.D., Hickok, D.F. Molecular dynamics simulations in solvent of the glucocorticoid receptor protein in complex with a glucocorticoid response element DNA sequence. J. Biomol. Struct. Dyn. 12:249-270, 1994.
-
(1994)
J. Biomol. Struct. Dyn.
, vol.12
, pp. 249-270
-
-
Harris, L.F.1
Sullivan, M.R.2
Popken-Harris, P.D.3
Hickok, D.F.4
-
45
-
-
0030025260
-
Molecular dynamics study of glucocorticoid receptor DNA binding
-
Bishop, T.C., Schulten, K. Molecular dynamics study of glucocorticoid receptor DNA binding. Proteins 24:115-133, 1996.
-
(1996)
Proteins
, vol.24
, pp. 115-133
-
-
Bishop, T.C.1
Schulten, K.2
-
46
-
-
0030941120
-
How hormone receptor-DNA binding affects nucleosomal DNA: The role of symmetry
-
Bishop, T.C., Kosztin, D., Schulten, K. How hormone receptor-DNA binding affects nucleosomal DNA: The role of symmetry. Biophys. J. 72:2056-2067, 1997.
-
(1997)
Biophys. J.
, vol.72
, pp. 2056-2067
-
-
Bishop, T.C.1
Kosztin, D.2
Schulten, K.3
-
47
-
-
0030805890
-
Binding of the estrogen receptor to DNA: The role of waters
-
Kosztin, D., Bishop, T.C., Schulten, K. Binding of the estrogen receptor to DNA: The role of waters. Biophys. J. 73:557-570, 1997.
-
(1997)
Biophys. J.
, vol.73
, pp. 557-570
-
-
Kosztin, D.1
Bishop, T.C.2
Schulten, K.3
-
48
-
-
0030604702
-
Hydration and DNA recognition by homeodomains
-
Billeter, M., Giintert, P., Luginbiihl, P., Wiithrich, K. Hydration and DNA recognition by homeodomains. Cell 85:1057-1065, 1996.
-
(1996)
Cell
, vol.85
, pp. 1057-1065
-
-
Billeter, M.1
Giintert, P.2
Luginbiihl, P.3
Wiithrich, K.4
-
49
-
-
0343034508
-
Homology modeling and molecular dynamics simulations of the Gla domains of human coagulation factor IX and its G[12]A mutant
-
Li, L., Darden, T., Hiskey, R., Pedersen, L. Homology modeling and molecular dynamics simulations of the Gla domains of human coagulation factor IX and its G[12]A mutant. J. Phys. Chem. 100:2475-2479, 1996.
-
(1996)
J. Phys. Chem.
, vol.100
, pp. 2475-2479
-
-
Li, L.1
Darden, T.2
Hiskey, R.3
Pedersen, L.4
-
50
-
-
2642612612
-
-
Polygen Corp., Waltham, MA
-
"Quanta." Polygen Corp., Waltham, MA, 1988.
-
(1988)
Quanta
-
-
-
51
-
-
0027504913
-
Crystal structure of a yeast TBP/TATA-box complex
-
Kim, Y., Geiger, J.H., Hahn, S., Sigler, P.B. Crystal structure of a yeast TBP/TATA-box complex. Nature 365:512-520, 1993.
-
(1993)
Nature
, vol.365
, pp. 512-520
-
-
Kim, Y.1
Geiger, J.H.2
Hahn, S.3
Sigler, P.B.4
-
52
-
-
33750587438
-
Molecular dynamics with coupling to an external bath
-
Berendsen, H.J.C., Postma, J.P.M., van Gunsteren, W.F., DiNola, A., Haak, J.R. Molecular dynamics with coupling to an external bath. J. Chem. Phys. 81:3684-3690, 1984.
-
(1984)
J. Chem. Phys.
, vol.81
, pp. 3684-3690
-
-
Berendsen, H.J.C.1
Postma, J.P.M.2
Van Gunsteren, W.F.3
DiNola, A.4
Haak, J.R.5
-
53
-
-
0003769049
-
-
New Haven, CT: Yale University, Howard Hughes Medical Institute and Department of Molecular Biophysics and Biochemistry
-
Brünger, A.T. "X-PLOR, Version 3.1: A System for X-ray Crystallography and NMR." New Haven, CT: Yale University, Howard Hughes Medical Institute and Department of Molecular Biophysics and Biochemistry, 1992.
-
(1992)
X-PLOR, Version 3.1: A System for X-ray Crystallography and NMR
-
-
Brünger, A.T.1
-
54
-
-
6344260593
-
An all-atom empirical energy function for the simulation of nucleic acids
-
MacKerell A.D. Jr., Wiorkiewicz-Kuczera, J., Karplus, M. An all-atom empirical energy function for the simulation of nucleic acids. J. Am. Chem. Soc. 117:11946-11975, 1995.
-
(1995)
J. Am. Chem. Soc.
, vol.117
, pp. 11946-11975
-
-
MacKerell Jr., A.D.1
Wiorkiewicz-Kuczera, J.2
Karplus, M.3
-
55
-
-
2642646869
-
-
Submitted for publication
-
MacKerell Jr., A.D., Bashford, D., Bellott, M., Dunbrack Jr., R.L., Evanseck, J., Field, M.J., Fischer, S., Gao, J., Guo, H., Ha, S., Joseph, D., Kuchnir, L., Kuczera, K., Lau, F.T.K., Mattos, C., Michnick, S., Ngo, T., Nguyen, D.T., Prodhom, B., Reiher, I.W.E., Roux, B., Schlenkrich, M., Smith, J., Stote, R., Straub, J., Watanabe, M., Wiorkiewicz-Kuczera, J., Yin, D., Karplus, M. All-hydrogen Empirical Potential for Molecular Modeling and Dynamics Studies of Proteins using the CHARMM22 Force Field. Submitted for publication, 1997.
-
(1997)
All-hydrogen Empirical Potential for Molecular Modeling and Dynamics Studies of Proteins Using the CHARMM22 Force Field
-
-
MacKerell Jr., A.D.1
Bashford, D.2
Bellott, M.3
Dunbrack Jr., R.L.4
Evanseck, J.5
Field, M.J.6
Fischer, S.7
Gao, J.8
Guo, H.9
Ha, S.10
Joseph, D.11
Kuchnir, L.12
Kuczera, K.13
Lau, F.T.K.14
Mattos, C.15
Michnick, S.16
Ngo, T.17
Nguyen, D.T.18
Prodhom, B.19
Reiher, I.W.E.20
Roux, B.21
Schlenkrich, M.22
Smith, J.23
Stote, R.24
Straub, J.25
Watanabe, M.26
Wiorkiewicz-Kuczera, J.27
Yin, D.28
Karplus, M.29
more..
-
56
-
-
0000217485
-
Self-consistent parameterization of biomolecules for molecular modeling and condensed phase simulations
-
MacKerell Jr., AD., Bashford, D., Bellott, M., Dunbrack Jr., R.L., Field, M.J., Fischer, S., Gao, J., Guo, H., Ha, S., Joseph, D., Kuchnir, L., Kuczera, K., Lau, F.T.K., Mattos, C., Michnick, S., Ngo, T., Nguygen, D.T., Prodhom, B., Rouz, B., Schlenkrich, M., Smith, J.C., Stote, R., Straub, J., Wiorkiewicz-Kuczera, J., Karplus, M. Self-consistent parameterization of biomolecules for molecular modeling and condensed phase simulations. FASEB Journal 6:A143, 1992.
-
(1992)
FASEB Journal
, vol.6
-
-
MacKerell Jr., A.D.1
Bashford, D.2
Bellott, M.3
Dunbrack Jr., R.L.4
Field, M.J.5
Fischer, S.6
Gao, J.7
Guo, H.8
Ha, S.9
Joseph, D.10
Kuchnir, L.11
Kuczera, K.12
Lau, F.T.K.13
Mattos, C.14
Michnick, S.15
Ngo, T.16
Nguygen, D.T.17
Prodhom, B.18
Rouz, B.19
Schlenkrich, M.20
Smith, J.C.21
Stote, R.22
Straub, J.23
Wiorkiewicz-Kuczera, J.24
Karplus, M.25
more..
-
57
-
-
0024556774
-
Conformational and helicoidal analysis of 30 ps of molecular dynamics on the d(CGCGAATTCGCG) double helix
-
Ravishanker, G., Swarninathan, S., Beveridge, D.L., Lavery, R., Sklenar, H. Conformational and helicoidal analysis of 30 ps of molecular dynamics on the d(CGCGAATTCGCG) double helix. J. Biomol. Struct. Dyn. 6:669-699, 1989.
-
(1989)
J. Biomol. Struct. Dyn.
, vol.6
, pp. 669-699
-
-
Ravishanker, G.1
Swarninathan, S.2
Beveridge, D.L.3
Lavery, R.4
Sklenar, H.5
-
58
-
-
0029878720
-
VMD-Visual molecular dynamics
-
Humphrey, W.F., Dalke, A., Schulten, K. VMD-Visual molecular dynamics. J. Mol. Graph. 14:33-38, 1996.
-
(1996)
J. Mol. Graph.
, vol.14
, pp. 33-38
-
-
Humphrey, W.F.1
Dalke, A.2
Schulten, K.3
-
59
-
-
0015222647
-
The interpretation of protein structures: Estimation of static accessibility
-
Lee, B., Richards, F.M. The interpretation of protein structures: Estimation of static accessibility. J. Mol. Biol. 55:379-400, 1971.
-
(1971)
J. Mol. Biol.
, vol.55
, pp. 379-400
-
-
Lee, B.1
Richards, F.M.2
-
60
-
-
0028657623
-
Molecular basis of mammalian sexual determination: Activation of Müllerian inhibiting substance gene expression by SRY
-
Haqq, C.M., King, C.-Y., Ukiyama, E., Falsafi, S., Haqq, T.N., Donahoe, P.K., Weiss, M.A. Molecular basis of mammalian sexual determination: Activation of Müllerian inhibiting substance gene expression by SRY. Science 266:1494-1500, 1994.
-
(1994)
Science
, vol.266
, pp. 1494-1500
-
-
Haqq, C.M.1
King, C.-Y.2
Ukiyama, E.3
Falsafi, S.4
Haqq, T.N.5
Donahoe, P.K.6
Weiss, M.A.7
-
61
-
-
0030610119
-
Oxidation of a critical methionine modulates DNA binding of the Drosophila melanogaster high-mobility group protein, HMG-D
-
Dow, L.K., Changela, A., Hefner, H.E., Churchill, M.E.A. Oxidation of a critical methionine modulates DNA binding of the Drosophila melanogaster high-mobility group protein, HMG-D. FEBS Letters 414:514-520, 1997.
-
(1997)
FEBS Letters
, vol.414
, pp. 514-520
-
-
Dow, L.K.1
Changela, A.2
Hefner, H.E.3
Churchill, M.E.A.4
-
62
-
-
0027993040
-
The DNA sequence specificity of HMG boxes lies in the minor wing of the structure
-
Read, C.M., Cary, P.D., Preston, N.S., Lnenicek-Allen, M., Crane-Robinson, C. The DNA sequence specificity of HMG boxes lies in the minor wing of the structure. EMBO J. 13:5639-5646, 1994.
-
(1994)
EMBO J.
, vol.13
, pp. 5639-5646
-
-
Read, C.M.1
Cary, P.D.2
Preston, N.S.3
Lnenicek-Allen, M.4
Crane-Robinson, C.5
-
63
-
-
0028173030
-
Crystal structure of LacI member, PurR, bound to DNA: Minor groove binding by a helices
-
Schumacher, M.A., Choi, K.Y., Zalkin, H., Brennan, R.G. Crystal structure of LacI member, PurR, bound to DNA: Minor groove binding by a helices. Science 266:763-770, 1994.
-
(1994)
Science
, vol.266
, pp. 763-770
-
-
Schumacher, M.A.1
Choi, K.Y.2
Zalkin, H.3
Brennan, R.G.4
-
64
-
-
0029798673
-
Structure model of a complex between the Factor for Inversion Stimulation (FIS) and DNA: Modeling protein-DNA complexes with dyad symmetry and known protein structures
-
Sandmann, C., Cordes, F., Saenger, W. Structure model of a complex between the Factor for Inversion Stimulation (FIS) and DNA: Modeling protein-DNA complexes with dyad symmetry and known protein structures. Proteins 25:486-500, 1996.
-
(1996)
Proteins
, vol.25
, pp. 486-500
-
-
Sandmann, C.1
Cordes, F.2
Saenger, W.3
-
65
-
-
0028009297
-
Knowledge-based protein modeling
-
Johnson, M.S., Srinivasan, N., Sowdhamini, R., Blundell, T.L. Knowledge-based protein modeling. Grit. Rev. Biochem. Mol. Biol. 29:168, 1994.
-
(1994)
Grit. Rev. Biochem. Mol. Biol.
, vol.29
, pp. 168
-
-
Johnson, M.S.1
Srinivasan, N.2
Sowdhamini, R.3
Blundell, T.L.4
-
66
-
-
0029153599
-
Predicting the structure of the light-harvesting complex II of Rhodospirillum molischianum
-
Hu, X., Xu, D., Hamer, K., Schulten, K., Köpke, J., Michel, H. Predicting the structure of the light-harvesting complex II of Rhodospirillum molischianum. Protein Sci. 4:1670-1682, 1995.
-
(1995)
Protein Sci.
, vol.4
, pp. 1670-1682
-
-
Hu, X.1
Xu, D.2
Hamer, K.3
Schulten, K.4
Köpke, J.5
Michel, H.6
-
67
-
-
0029096665
-
NMR spectroscopic analysis of the DNA conformation induced by the human testis determining factor SRY
-
Werner, M.H., Bianchi, M.E., Gronenborn, A.M., Clore, G.M. NMR spectroscopic analysis of the DNA conformation induced by the human testis determining factor SRY. Biochemistry 34:11998-12004, 1995.
-
(1995)
Biochemistry
, vol.34
, pp. 11998-12004
-
-
Werner, M.H.1
Bianchi, M.E.2
Gronenborn, A.M.3
Clore, G.M.4
-
68
-
-
0026319199
-
Protein folding and association: Insights from the interfacial and thermodynamic properties of hydrocarbons
-
Nicholls, A., Sharp, K.A., Honig, B. Protein folding and association: Insights from the interfacial and thermodynamic properties of hydrocarbons. Proteins 11:281-296, 1991.
-
(1991)
Proteins
, vol.11
, pp. 281-296
-
-
Nicholls, A.1
Sharp, K.A.2
Honig, B.3
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