-
2
-
-
0001877502
-
The Ah receptor signal transduction pathway
-
Denison, M. S, and Helferich, W. G, Eds, pp, Taylor and Francis, Philadelphia, PA
-
Denison, M. S., Elferink, C. F., and Phelan, D. (1998) The Ah receptor signal transduction pathway, in Toxicant-Receptor Interactions in the Modulation of Signal Transduction and Gene Expression (Denison, M. S., and Helferich, W. G., Eds.) pp 3-33, Taylor and Francis, Philadelphia, PA.
-
(1998)
Toxicant-Receptor Interactions in the Modulation of Signal Transduction and Gene Expression
, pp. 3-33
-
-
Denison, M.S.1
Elferink, C.F.2
Phelan, D.3
-
3
-
-
0034969560
-
Induction of CYP1A1. The AhR/DRE paradigm: Transcription, receptor regulation, and expanding biological roles
-
Ma, Q. (2001) Induction of CYP1A1. The AhR/DRE paradigm: Transcription, receptor regulation, and expanding biological roles, Curr. Drug Metab. 2, 149-164.
-
(2001)
Curr. Drug Metab
, vol.2
, pp. 149-164
-
-
Ma, Q.1
-
4
-
-
0001877503
-
Natural and synthetic ligands for the Ah receptor
-
Puga A, and Wallace, K. B, Eds, pp, Taylor & Francis, Philadelphia, PA
-
Denison, M. S., Seidel, S. D., Rogers, W. J., Ziccardi, M., Winter, G. M., and Heath-Pagliuso, S. (1998) Natural and synthetic ligands for the Ah receptor, in Molecular Biology Approaches to Toxicology (Puga A., and Wallace, K. B., Eds.) pp 393-410, Taylor & Francis, Philadelphia, PA.
-
(1998)
Molecular Biology Approaches to Toxicology
, pp. 393-410
-
-
Denison, M.S.1
Seidel, S.D.2
Rogers, W.J.3
Ziccardi, M.4
Winter, G.M.5
Heath-Pagliuso, S.6
-
5
-
-
0032406634
-
The Ah receptor: A regulator of the biochemical and toxicological actions of structurally diverse chemicals
-
Denison, M. S., and Heath-Pagliuso, S. (1998) The Ah receptor: a regulator of the biochemical and toxicological actions of structurally diverse chemicals, Bull. Environ. Contam. Toxicol. 61, 557-568.
-
(1998)
Bull. Environ. Contam. Toxicol
, vol.61
, pp. 557-568
-
-
Denison, M.S.1
Heath-Pagliuso, S.2
-
6
-
-
0037144119
-
Ligand binding and activation of the Ah receptor
-
Denison, M. S., Pandini, A., Nagy, S. R., Baldwin, E. P., and Bonati, L. (2002) Ligand binding and activation of the Ah receptor, Chem.-Biol. Interact. 141, 3-24.
-
(2002)
Chem.-Biol. Interact
, vol.141
, pp. 3-24
-
-
Denison, M.S.1
Pandini, A.2
Nagy, S.R.3
Baldwin, E.P.4
Bonati, L.5
-
7
-
-
0024997614
-
Polychlorinated biphenyls (PCBs), dibenzo-p-dioxins (PCDDs), dibenzofurans (PCDFs), and related compounds: Environmental and mechanistic considerations which support the development of toxic equivalency factors (TEFs)
-
Safe, S. (1990) Polychlorinated biphenyls (PCBs), dibenzo-p-dioxins (PCDDs), dibenzofurans (PCDFs), and related compounds: environmental and mechanistic considerations which support the development of toxic equivalency factors (TEFs), Crit. Rev. Toxicol. 21, 51-88.
-
(1990)
Crit. Rev. Toxicol
, vol.21
, pp. 51-88
-
-
Safe, S.1
-
8
-
-
0037145025
-
The role of chaperone proteins in the aryl hydrocarbon receptor core complex
-
Petrulis, J. R., and Perdew, G. H. (2002) The role of chaperone proteins in the aryl hydrocarbon receptor core complex, Chem.-Biol. Interact. 141, 25-40.
-
(2002)
Chem.-Biol. Interact
, vol.141
, pp. 25-40
-
-
Petrulis, J.R.1
Perdew, G.H.2
-
9
-
-
0037308773
-
Agonist but not antagonist ligands induce conformational change in the mouse aryl hydrocarbon receptor as dectected by parital proteolysis
-
Henry, E. C., and Gasiewicz, T. A. (2003) Agonist but not antagonist ligands induce conformational change in the mouse aryl hydrocarbon receptor as dectected by parital proteolysis, Mol. Pharmacol. 63, 392-400.
-
(2003)
Mol. Pharmacol
, vol.63
, pp. 392-400
-
-
Henry, E.C.1
Gasiewicz, T.A.2
-
10
-
-
0027944707
-
Physiochemical and immunochemical analysis of aryl hydrocarbon receptor nuclear translocator: Characterization of two monoclonal antibodies to the aryl hydrocarbon receptor nuclear translocator
-
Hord, N. G., and Perdew, G. H. (1994) Physiochemical and immunochemical analysis of aryl hydrocarbon receptor nuclear translocator: characterization of two monoclonal antibodies to the aryl hydrocarbon receptor nuclear translocator, Mol. Pharmacol. 46, 618-624.
-
(1994)
Mol. Pharmacol
, vol.46
, pp. 618-624
-
-
Hord, N.G.1
Perdew, G.H.2
-
11
-
-
0028987872
-
The aryl hydrocarbon receptor complex
-
Hankinson, O. (1995) The aryl hydrocarbon receptor complex, Annu. Rev. Pharmacol. Toxicol. 35, 307-340.
-
(1995)
Annu. Rev. Pharmacol. Toxicol
, vol.35
, pp. 307-340
-
-
Hankinson, O.1
-
13
-
-
0028823398
-
Definition of a minimal domain of the dioxin receptor that is associated with Hsp90 and maintains wild type ligand binding affinity and specificity
-
Coumailleau, P., Poellinger, L., Gustafsson, J.-A., and Whitelaw, M. L. (1995) Definition of a minimal domain of the dioxin receptor that is associated with Hsp90 and maintains wild type ligand binding affinity and specificity, J. Biol. Chem. 270, 25291-25300.
-
(1995)
J. Biol. Chem
, vol.270
, pp. 25291-25300
-
-
Coumailleau, P.1
Poellinger, L.2
Gustafsson, J.-A.3
Whitelaw, M.L.4
-
14
-
-
0028858097
-
Identification of functional domains of the aryl hydrocarbon receptor
-
Fukunaga, B. N., Probst, M. R., Reisz-Porsza sz, S., and Hankinson, O. (1995) Identification of functional domains of the aryl hydrocarbon receptor, J. Biol. Chem. 270, 29270-29278.
-
(1995)
J. Biol. Chem
, vol.270
, pp. 29270-29278
-
-
Fukunaga, B.N.1
Probst, M.R.2
Reisz-Porsza sz, S.3
Hankinson, O.4
-
15
-
-
0030015845
-
Mapping the 90 kDa heat shock protein binding region of the Ah receptor
-
Perdew, G. H., and Bradfield, C. A. (1996) Mapping the 90 kDa heat shock protein binding region of the Ah receptor, Biochem. Mol. Biol. Int. 39, 589-593.
-
(1996)
Biochem. Mol. Biol. Int
, vol.39
, pp. 589-593
-
-
Perdew, G.H.1
Bradfield, C.A.2
-
16
-
-
0028034621
-
Dioxin binding activities of polymorphic forms of mouse and human aryl hydrocarbon receptors
-
Ema, M., Ohe, N., Suzuki, M., Mimura, J., Sogawa, K., Ikawa, S., and Fujii-Kuriyama, Y. (1994) Dioxin binding activities of polymorphic forms of mouse and human aryl hydrocarbon receptors, J. Biol. Chem. 269, 27337-27343.
-
(1994)
J. Biol. Chem
, vol.269
, pp. 27337-27343
-
-
Ema, M.1
Ohe, N.2
Suzuki, M.3
Mimura, J.4
Sogawa, K.5
Ikawa, S.6
Fujii-Kuriyama, Y.7
-
17
-
-
0027944549
-
Analysis of the four alleles of the murine aryl hydrocarbon receptor
-
Poland, A., Palen, D., and Glover, E. (1994) Analysis of the four alleles of the murine aryl hydrocarbon receptor, Mol. Pharmacol. 46, 915-921.
-
(1994)
Mol. Pharmacol
, vol.46
, pp. 915-921
-
-
Poland, A.1
Palen, D.2
Glover, E.3
-
18
-
-
0035834762
-
Definition of a dioxin receptor mutant that is a constitutive activator of transcription: Delineation of overlapping repression and ligand binding functions within the PAS domain
-
McGuire, J., Okamoto, K., Whitelaw, M. L., Tanaka, H., and Poellinger, L. (2001) Definition of a dioxin receptor mutant that is a constitutive activator of transcription: delineation of overlapping repression and ligand binding functions within the PAS domain, J. Biol. Chem. 276, 41841-41849.
-
(2001)
J. Biol. Chem
, vol.276
, pp. 41841-41849
-
-
McGuire, J.1
Okamoto, K.2
Whitelaw, M.L.3
Tanaka, H.4
Poellinger, L.5
-
19
-
-
0029110488
-
1.4 Å structure of photoactive yellow protein, a cytosolic photoreceptor: Unusual fold, active site, and chromophore
-
Borgstahl, G. E., Williams, D. R., and Getzoff, E. D. (1995) 1.4 Å structure of photoactive yellow protein, a cytosolic photoreceptor: unusual fold, active site, and chromophore, Biochemistry 34, 6278-6287.
-
(1995)
Biochemistry
, vol.34
, pp. 6278-6287
-
-
Borgstahl, G.E.1
Williams, D.R.2
Getzoff, E.D.3
-
20
-
-
0037596438
-
Solution structure and backbone dynamics of the photoactive yellow protein
-
Dux, P., Rubinstenn, G., Vuister, G. W., Boelens, R., Mulder, F. A., Hard, K., Hoff, W. D., Kroon, A. R., Crielaard, W., Hellingwerf, K. J., and Kaptein, R. (1998) Solution structure and backbone dynamics of the photoactive yellow protein, Biochemistry 37, 12689-12699.
-
(1998)
Biochemistry
, vol.37
, pp. 12689-12699
-
-
Dux, P.1
Rubinstenn, G.2
Vuister, G.W.3
Boelens, R.4
Mulder, F.A.5
Hard, K.6
Hoff, W.D.7
Kroon, A.R.8
Crielaard, W.9
Hellingwerf, K.J.10
Kaptein, R.11
-
21
-
-
0032567106
-
Crystal structure and functional analysis of the HERG potassium channel N terminus: A eucaryotic PAS domain
-
Cabral, J. H. M., Lee, A., Cohen, S. L., Chait, B. T., Li, M., and Mackinnon, R. (1998) Crystal structure and functional analysis of the HERG potassium channel N terminus: a eucaryotic PAS domain, Cell 95, 649-655.
-
(1998)
Cell
, vol.95
, pp. 649-655
-
-
Cabral, J.H.M.1
Lee, A.2
Cohen, S.L.3
Chait, B.T.4
Li, M.5
Mackinnon, R.6
-
22
-
-
0032438105
-
Structure of a biological oxygen sensor: A new mechanism for heme-driven signal transduction
-
Gong, W., Hao, B., Mansy, S. S., Gonzalez, G., Gilles-Gonzalez, M. A., and Chan, M. K. (1998) Structure of a biological oxygen sensor: A new mechanism for heme-driven signal transduction, Proc. Natl. Acad. Sci. U.S.A. 95, 15177-15182.
-
(1998)
Proc. Natl. Acad. Sci. U.S.A
, vol.95
, pp. 15177-15182
-
-
Gong, W.1
Hao, B.2
Mansy, S.S.3
Gonzalez, G.4
Gilles-Gonzalez, M.A.5
Chan, M.K.6
-
23
-
-
0036153480
-
A model for recognition of polychlorinated dibenzo-p-dioxins by the aryl hydrocarbon receptor
-
Procopio, M., Lahm, A., Tramontano, A., Bonati, L., and Pitea, D. (2002) A model for recognition of polychlorinated dibenzo-p-dioxins by the aryl hydrocarbon receptor, Eur. J. Biochem. 269, 13-18.
-
(2002)
Eur. J. Biochem
, vol.269
, pp. 13-18
-
-
Procopio, M.1
Lahm, A.2
Tramontano, A.3
Bonati, L.4
Pitea, D.5
-
24
-
-
24944488902
-
Evidence that ligand binding is a key determinant of Ah receptor-mediated transcriptional activity
-
Murray, I. A., Reen, R. K., Leathery, N., Ramadoss, P., Bonati, L., Gonzalez, F. J., Peters, J. M., and Perdew, G. H. (2005) Evidence that ligand binding is a key determinant of Ah receptor-mediated transcriptional activity, Arch. Biochem. Biophys. 442, 59-71.
-
(2005)
Arch. Biochem. Biophys
, vol.442
, pp. 59-71
-
-
Murray, I.A.1
Reen, R.K.2
Leathery, N.3
Ramadoss, P.4
Bonati, L.5
Gonzalez, F.J.6
Peters, J.M.7
Perdew, G.H.8
-
25
-
-
0035853139
-
Structure of a flavin-binding plant photoreceptor domain: Insights into light-mediated signal transduction
-
Crosson, S., and Moffat, K. (2001) Structure of a flavin-binding plant photoreceptor domain: Insights into light-mediated signal transduction, Proc. Natl. Acad. Sci. U.S.A. 98, 2995-3000.
-
(2001)
Proc. Natl. Acad. Sci. U.S.A
, vol.98
, pp. 2995-3000
-
-
Crosson, S.1
Moffat, K.2
-
26
-
-
33846360730
-
New insights into the structure of the mAhR ligand binding domain
-
Bonati, L., Pandini, A., Pitea, D., Song, Y., and Denison, M. S. (2002) New insights into the structure of the mAhR ligand binding domain, Organohalogen Compd. 59, 429-432.
-
(2002)
Organohalogen Compd
, vol.59
, pp. 429-432
-
-
Bonati, L.1
Pandini, A.2
Pitea, D.3
Song, Y.4
Denison, M.S.5
-
27
-
-
0036774056
-
Structure and interactions of PAS kinase N-terminal PAS domain: Model for intramolecular kinase regulation
-
Amezcua, C., Harper, S., Rutter, J., and Gardner, K. (2002) Structure and interactions of PAS kinase N-terminal PAS domain: model for intramolecular kinase regulation, Structure (Cambridge) 10, 1349-1361.
-
(2002)
Structure (Cambridge)
, vol.10
, pp. 1349-1361
-
-
Amezcua, C.1
Harper, S.2
Rutter, J.3
Gardner, K.4
-
28
-
-
0346734132
-
Structural basis for PAS domain heterodimerization in the basic helix-loop-helix-PAS transcription factor hypoxia-inducible factor
-
Erbel, P. J., Card, P. B., Karakuzu, O., Bruick, R. K., and Gardner, K. H. (2003) Structural basis for PAS domain heterodimerization in the basic helix-loop-helix-PAS transcription factor hypoxia-inducible factor, Proc. Natl. Acad. Sci, U.S.A. 100, 15504-15509.
-
(2003)
Proc. Natl. Acad. Sci, U.S.A
, vol.100
, pp. 15504-15509
-
-
Erbel, P.J.1
Card, P.B.2
Karakuzu, O.3
Bruick, R.K.4
Gardner, K.H.5
-
29
-
-
9144260515
-
Structure of the NCoA-1/Src-1 PAS-B domain bound to the LXXLL motif of the Stat6 transactivation domain
-
Razeto, A., Ramakrishnan, V., Litterst, C. M., Giller, K., Griesinger, C., Carlomagno, T., Lakomek, N., Heimburg, T., Lodrini, M., Pfitzner, E., and Becker, S. (2004) Structure of the NCoA-1/Src-1 PAS-B domain bound to the LXXLL motif of the Stat6 transactivation domain, J. Mol. Biol. 336, 319-329.
-
(2004)
J. Mol. Biol
, vol.336
, pp. 319-329
-
-
Razeto, A.1
Ramakrishnan, V.2
Litterst, C.M.3
Giller, K.4
Griesinger, C.5
Carlomagno, T.6
Lakomek, N.7
Heimburg, T.8
Lodrini, M.9
Pfitzner, E.10
Becker, S.11
-
30
-
-
19944426818
-
Crystal structure and interactions of the PAS repeat region of the Drosophila clock protein period
-
Yildiz, O., Doi, M., Yujnovsky, I., Cardone, L., Berndt, A., Hennig, S., Schulze, S., Urbanke, C., Sassone-Corsi, P., and Wolf, E. (2005) Crystal structure and interactions of the PAS repeat region of the Drosophila clock protein period, Mol. Cell 17, 69-82.
-
(2005)
Mol. Cell
, vol.17
, pp. 69-82
-
-
Yildiz, O.1
Doi, M.2
Yujnovsky, I.3
Cardone, L.4
Berndt, A.5
Hennig, S.6
Schulze, S.7
Urbanke, C.8
Sassone-Corsi, P.9
Wolf, E.10
-
31
-
-
26244466162
-
Structural basis of Arnt PAS-B dimerization: Use of a common beta-sheet interface for hetero- and homodimerization
-
Card, P. B., Erbel, P. J., and Gardner, K. H. (2005) Structural basis of Arnt PAS-B dimerization: use of a common beta-sheet interface for hetero- and homodimerization, J. Mol. Biol. 353, 664-678.
-
(2005)
J. Mol. Biol
, vol.353
, pp. 664-678
-
-
Card, P.B.1
Erbel, P.J.2
Gardner, K.H.3
-
32
-
-
0345708353
-
The mammalian basic helix-loop-helix/PAS family of transcriptional regulators
-
Kewley, R. J., Whitelaw, M. L., and Chapman-Smith, A. (2004) The mammalian basic helix-loop-helix/PAS family of transcriptional regulators, Int. J. Biochem. Cell Biol. 36, 189-204.
-
(2004)
Int. J. Biochem. Cell Biol
, vol.36
, pp. 189-204
-
-
Kewley, R.J.1
Whitelaw, M.L.2
Chapman-Smith, A.3
-
33
-
-
0033954256
-
The Protein Data Bank
-
Berman, H. M., Westbrook, J., Feng, Z., Gilliland, G., Bhat, T. N., Weissig, H., Shindyalov, I. N., and Bourne, P. E. (2000) The Protein Data Bank, Nucleic Acids Res. 28, 235-242.
-
(2000)
Nucleic Acids Res
, vol.28
, pp. 235-242
-
-
Berman, H.M.1
Westbrook, J.2
Feng, Z.3
Gilliland, G.4
Bhat, T.N.5
Weissig, H.6
Shindyalov, I.N.7
Bourne, P.E.8
-
34
-
-
0029831680
-
An automated approach for clustering an ensemble of NMR-derived protein structures into conformationally related subfamilies
-
Kelley, L. A., Gardner, S. P., and Sutcliffe, M. J. (1996) An automated approach for clustering an ensemble of NMR-derived protein structures into conformationally related subfamilies, Protein Eng. 9, 1063-1065.
-
(1996)
Protein Eng
, vol.9
, pp. 1063-1065
-
-
Kelley, L.A.1
Gardner, S.P.2
Sutcliffe, M.J.3
-
35
-
-
0043125483
-
Anticipatory active-site motions and chromophore distortion prime photoreceptor PYP for light activation
-
Getzoff, E. D., Gutwin, K. N., and Genick, U. K. (2003) Anticipatory active-site motions and chromophore distortion prime photoreceptor PYP for light activation, Nat. Struct. Biol. 10, 663-668.
-
(2003)
Nat. Struct. Biol
, vol.10
, pp. 663-668
-
-
Getzoff, E.D.1
Gutwin, K.N.2
Genick, U.K.3
-
36
-
-
0030801002
-
Gapped BLAST and PSI-BLAST: A new generation of protein database search programs
-
Altschul, S. F., Madden, T. L., Schäffer, A. A., Zhang, J., Zhang, Z., Miller, W., and Lipman, D. J. (1997) Gapped BLAST and PSI-BLAST: a new generation of protein database search programs, Nucleic Acids Res. 25, 3389-3402.
-
(1997)
Nucleic Acids Res
, vol.25
, pp. 3389-3402
-
-
Altschul, S.F.1
Madden, T.L.2
Schäffer, A.A.3
Zhang, J.4
Zhang, Z.5
Miller, W.6
Lipman, D.J.7
-
37
-
-
0027136282
-
Comparative protein modelling by satisfaction of spatial restraints
-
Sali, A., and Blundell, T. L. (1993) Comparative protein modelling by satisfaction of spatial restraints, J. Mol. Biol. 234, 779-815.
-
(1993)
J. Mol. Biol
, vol.234
, pp. 779-815
-
-
Sali, A.1
Blundell, T.L.2
-
38
-
-
0033873929
-
Comparative protein structure modeling of genes and genomes
-
Marti-Renom, M. A., Stuart, A., Fiser, A., Sánchez, R., Melo, F., and Sali, A. (2000) Comparative protein structure modeling of genes and genomes, Annu. Rev. Biophys. Biomol. Struct. 29, 291-325.
-
(2000)
Annu. Rev. Biophys. Biomol. Struct
, vol.29
, pp. 291-325
-
-
Marti-Renom, M.A.1
Stuart, A.2
Fiser, A.3
Sánchez, R.4
Melo, F.5
Sali, A.6
-
39
-
-
0033810049
-
Modeling of loops in protein structures
-
Fiser, A., Do, R. K., and Sali, A. (2000) Modeling of loops in protein structures, Protein Sci. 9, 1753-1773.
-
(2000)
Protein Sci
, vol.9
, pp. 1753-1773
-
-
Fiser, A.1
Do, R.K.2
Sali, A.3
-
40
-
-
0041784950
-
-
MacKerell, A. D., Jr., Bashford, D., Bellott, M., Dunbrack, R. L., Jr., Evanseck, J. D., Field, M. J., Fischer, S., Gao, J., Guo, H., Ha, S., Joseph-McCarthy, D., Kuchnir, L., Kuczera, K., Lau, F. T. K., Mattos, C., Michnick, S., Ngo, T., Nguyen, D. T., Prodhom, B., Reiher, W. E., III, Roux, B., Schlenkrich, M., Smith, J. C., Stote, R., Straub, J., Watanabe, M., Wiorkiewicz-Kuczera, J., Yin, D., and Karplus, M. (1998) All-atom empirical potential for molecular modeling and dynamics studies of proteins, J. Phys. Chem. B 102, 3586-3616.
-
MacKerell, A. D., Jr., Bashford, D., Bellott, M., Dunbrack, R. L., Jr., Evanseck, J. D., Field, M. J., Fischer, S., Gao, J., Guo, H., Ha, S., Joseph-McCarthy, D., Kuchnir, L., Kuczera, K., Lau, F. T. K., Mattos, C., Michnick, S., Ngo, T., Nguyen, D. T., Prodhom, B., Reiher, W. E., III, Roux, B., Schlenkrich, M., Smith, J. C., Stote, R., Straub, J., Watanabe, M., Wiorkiewicz-Kuczera, J., Yin, D., and Karplus, M. (1998) All-atom empirical potential for molecular modeling and dynamics studies of proteins, J. Phys. Chem. B 102, 3586-3616.
-
-
-
-
41
-
-
0027440362
-
Protein structure comparison by alignment of distance matrices
-
Holm, L., and Sander, C. (1993) Protein structure comparison by alignment of distance matrices, J. Mol. Biol. 233, 123-138.
-
(1993)
J. Mol. Biol
, vol.233
, pp. 123-138
-
-
Holm, L.1
Sander, C.2
-
42
-
-
0033824470
-
DaliLite workbench for protein structure comparison
-
Holm, L., and Park, J. (2000) DaliLite workbench for protein structure comparison, Bioinformatics 16, 566-567.
-
(2000)
Bioinformatics
, vol.16
, pp. 566-567
-
-
Holm, L.1
Park, J.2
-
43
-
-
0027968068
-
CLUSTAL W: Improving the sensitivity of progressive multiple sequence alignment through sequence weighting, positions-specific gap penalties and weight matrix choice
-
Thompson, J. D., Higgins, D. G., and Gibson, T. J. (1994) CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, positions-specific gap penalties and weight matrix choice, Nucleic Acids Res. 22, 4673-4680.
-
(1994)
Nucleic Acids Res
, vol.22
, pp. 4673-4680
-
-
Thompson, J.D.1
Higgins, D.G.2
Gibson, T.J.3
-
44
-
-
0033578684
-
Protein secondary structure prediction based on position-specific scoring matrices
-
Jones, D. T. (1999) Protein secondary structure prediction based on position-specific scoring matrices, J. Mol. Biol. 292, 195-202.
-
(1999)
J. Mol. Biol
, vol.292
, pp. 195-202
-
-
Jones, D.T.1
-
45
-
-
0000243829
-
PROCHECK: A program to check the stereochemical quality of protein structures
-
Laskowski, R. A., MacArthur, M. W., Moss, D. S., and Thornton, J. M. (1993) PROCHECK: a program to check the stereochemical quality of protein structures, J. Appl. Crystallogr. 26, 283-291.
-
(1993)
J. Appl. Crystallogr
, vol.26
, pp. 283-291
-
-
Laskowski, R.A.1
MacArthur, M.W.2
Moss, D.S.3
Thornton, J.M.4
-
46
-
-
0027490731
-
Recognition of errors in three-dimensional structures of proteins
-
Sippl, M. J. (1993) Recognition of errors in three-dimensional structures of proteins, Proteins 17, 355-362.
-
(1993)
Proteins
, vol.17
, pp. 355-362
-
-
Sippl, M.J.1
-
47
-
-
0032506030
-
Large-scale protein structure modeling of the Saccharomyces cerevisiae genome
-
Sanchez, R., and Sali, A. (1998) Large-scale protein structure modeling of the Saccharomyces cerevisiae genome, Proc. Natl. Acad. Sci. U.S.A. 95, 13597-13602.
-
(1998)
Proc. Natl. Acad. Sci. U.S.A
, vol.95
, pp. 13597-13602
-
-
Sanchez, R.1
Sali, A.2
-
49
-
-
33747818007
-
CASTp: Computed atas of surface topography of proteins with structural and topographical mapping of functionally annotated residues
-
Dundas, J., Ouyang, Z., Tseng, J., Binkowski, A., Turpaz, Y., and Liang, J. (2006) CASTp: computed atas of surface topography of proteins with structural and topographical mapping of functionally annotated residues, Nucleic Acids Res. 34, W116-W118.
-
(2006)
Nucleic Acids Res
, vol.34
-
-
Dundas, J.1
Ouyang, Z.2
Tseng, J.3
Binkowski, A.4
Turpaz, Y.5
Liang, J.6
-
50
-
-
0000538815
-
Analytical molecular surface calculation
-
Connolly, M. L. (1983) Analytical molecular surface calculation, J. Appl. Crystallogr. 16, 548-558.
-
(1983)
J. Appl. Crystallogr
, vol.16
, pp. 548-558
-
-
Connolly, M.L.1
-
51
-
-
0029633168
-
GROMACS: A message-passing parallel molecular dynamics implementation
-
Berendsen, H. J. C., van der Spoel, D. and van Drunen, R. (1995) GROMACS: A message-passing parallel molecular dynamics implementation, Comput. Phys. Commun. 91, 43-56.
-
(1995)
Comput. Phys. Commun
, vol.91
, pp. 43-56
-
-
Berendsen, H.J.C.1
van der Spoel, D.2
van Drunen, R.3
-
52
-
-
0035789518
-
GROMACS 3.0: A package for molecular simulation and trajectory analysis
-
Lindahl, E., Hess, B., and van der Spoel, D. (2001) GROMACS 3.0: a package for molecular simulation and trajectory analysis, J. Mol. Model. 7, 306-317.
-
(2001)
J. Mol. Model
, vol.7
, pp. 306-317
-
-
Lindahl, E.1
Hess, B.2
van der Spoel, D.3
-
53
-
-
33846823909
-
Particle mesh Ewald-an n·log(n) method for Ewald sums in large systems
-
Darden, T., York, D., and Pedersen, L. (1993) Particle mesh Ewald-an n·log(n) method for Ewald sums in large systems, J. Chem. Phys. 98, 10089-10092.
-
(1993)
J. Chem. Phys
, vol.98
, pp. 10089-10092
-
-
Darden, T.1
York, D.2
Pedersen, L.3
-
54
-
-
33646940952
-
Numerical integration of the Cartesian equations of motion of a system with constraints: Molecular dynamics of n-alkanes
-
Ryckaert, J. P., Ciccotti, G., and Berendsen, H. J. C. (1977) Numerical integration of the Cartesian equations of motion of a system with constraints: molecular dynamics of n-alkanes, J. Comput. Phys. 23, 327-341.
-
(1977)
J. Comput. Phys
, vol.23
, pp. 327-341
-
-
Ryckaert, J.P.1
Ciccotti, G.2
Berendsen, H.J.C.3
-
55
-
-
0000388705
-
LINCS: A linear constraint solver for molecular simulations
-
Hess, B., Bekker, H., Berendsen, H. J. C., and Fraaije, J. G. E. M. (1997) LINCS: a linear constraint solver for molecular simulations, J. Comput. Chem. 18, 1463-1472.
-
(1997)
J. Comput. Chem
, vol.18
, pp. 1463-1472
-
-
Hess, B.1
Bekker, H.2
Berendsen, H.J.C.3
Fraaije, J.G.E.M.4
-
56
-
-
0037099253
-
The silencing mediator of retinoic acid and thyroid hormone receptors can interact with the aryl hydrocarbon receptor but fails to repress Ah receptor-dependent gene expression
-
Rushing, S. R., and Denison, M. S. (2002) The silencing mediator of retinoic acid and thyroid hormone receptors can interact with the aryl hydrocarbon receptor but fails to repress Ah receptor-dependent gene expression, Arch. Biochem. Biophys. 403, 189-201.
-
(2002)
Arch. Biochem. Biophys
, vol.403
, pp. 189-201
-
-
Rushing, S.R.1
Denison, M.S.2
-
57
-
-
33846385718
-
-
Denison, M. S., Rogers, J. M., Rushing, S. R., Jones, C. L., Tetangco, S. C., and Heath-Pagliuso, S. (2002) Analysis of the Ah receptor signal transduction pathway, in Current Protocols in Toxicology (Maines, M., Costa, L. G., Reed, D. J., Sassa, S., and Sipes, I. G., Eds.) pp 4.8.1-4.8.45, John Wiley and Sons, New York.
-
Denison, M. S., Rogers, J. M., Rushing, S. R., Jones, C. L., Tetangco, S. C., and Heath-Pagliuso, S. (2002) Analysis of the Ah receptor signal transduction pathway, in Current Protocols in Toxicology (Maines, M., Costa, L. G., Reed, D. J., Sassa, S., and Sipes, I. G., Eds.) pp 4.8.1-4.8.45, John Wiley and Sons, New York.
-
-
-
-
58
-
-
0020997912
-
Dictionary of protein secondary structure: Pattern recognition of hydrogen-bonded and geometrical features
-
Kabsch, W., and Sander, C. (1983) Dictionary of protein secondary structure: pattern recognition of hydrogen-bonded and geometrical features, Biopolymers 22, 2577-2637.
-
(1983)
Biopolymers
, vol.22
, pp. 2577-2637
-
-
Kabsch, W.1
Sander, C.2
-
59
-
-
0032990441
-
PAS domains: Internal sensors of oxygen, redox potential, and light
-
Taylor, B. L., and Zhulin, I. B. (1999) PAS domains: internal sensors of oxygen, redox potential, and light, Microbiol. Mol. Biol. Rev. 63, 479-506.
-
(1999)
Microbiol. Mol. Biol. Rev
, vol.63
, pp. 479-506
-
-
Taylor, B.L.1
Zhulin, I.B.2
-
60
-
-
0022706389
-
The relation between the divergence of sequence and structure in proteins
-
Chothia, C., and Lesk, A. M. (1986) The relation between the divergence of sequence and structure in proteins, EMBO J. 5, 823-826.
-
(1986)
EMBO J
, vol.5
, pp. 823-826
-
-
Chothia, C.1
Lesk, A.M.2
-
61
-
-
0028871814
-
Evaluation of comparative protein modeling by MODELLER
-
Sali, A., Potterton, L., Yuan, F., van Vlijmen, H., and Karplus, M. (1995) Evaluation of comparative protein modeling by MODELLER, Proteins 23, 318-326.
-
(1995)
Proteins
, vol.23
, pp. 318-326
-
-
Sali, A.1
Potterton, L.2
Yuan, F.3
van Vlijmen, H.4
Karplus, M.5
-
62
-
-
0031687653
-
Anatomy of protein pockets and cavities: Measurement of binding site geometry and implications for ligand design
-
Liang, J., Edelsbrunner, H., and Woodward, C. (1998) Anatomy of protein pockets and cavities: measurement of binding site geometry and implications for ligand design, Protein Sci. 7, 1884-1897.
-
(1998)
Protein Sci
, vol.7
, pp. 1884-1897
-
-
Liang, J.1
Edelsbrunner, H.2
Woodward, C.3
-
63
-
-
0027049886
-
In vitro transformation of the human Ah receptor and its binding to a dioxin response element
-
Harper, P. A., Giannone, J. V., Okey, A. B., and Denison, M. S. (1992) In vitro transformation of the human Ah receptor and its binding to a dioxin response element, Mol. Pharmacol. 42, 603-612.
-
(1992)
Mol. Pharmacol
, vol.42
, pp. 603-612
-
-
Harper, P.A.1
Giannone, J.V.2
Okey, A.B.3
Denison, M.S.4
-
64
-
-
31444450716
-
Histidine-aromatic interactions in proteins and protein-ligand complexes: Quantum chemical study of X-ray and model structures
-
Cauet, E., Rooman, M., Wintjens, R., Lievin, J., and Biot, C. (2005) Histidine-aromatic interactions in proteins and protein-ligand complexes: quantum chemical study of X-ray and model structures, J. Chem. Theory Comput. 1, 472-483.
-
(2005)
J. Chem. Theory Comput
, vol.1
, pp. 472-483
-
-
Cauet, E.1
Rooman, M.2
Wintjens, R.3
Lievin, J.4
Biot, C.5
-
65
-
-
0000815488
-
Molecular polarizability as a tool for understanding the binding properties of polychlorinated dibenzo-p-dioxins: Definition of a reliable computational procedure
-
Fraschini, E., Bonati, L., and Pitea, D. (1996) Molecular polarizability as a tool for understanding the binding properties of polychlorinated dibenzo-p-dioxins: definition of a reliable computational procedure, J. Phys. Chem. 100, 10564-10569.
-
(1996)
J. Phys. Chem
, vol.100
, pp. 10564-10569
-
-
Fraschini, E.1
Bonati, L.2
Pitea, D.3
-
66
-
-
0002058784
-
A hypothesis on the mechanism of PCDD biological activity based on molecular electrostatic potential modeling. Part 2
-
Bonati, L., Fraschini, E., Lasagni, M., Palma Modoni, E., and Pitea, D. (1995) A hypothesis on the mechanism of PCDD biological activity based on molecular electrostatic potential modeling. Part 2, J. Mol. Struct. (Theochem) 340, 83-95.
-
(1995)
J. Mol. Struct. (Theochem)
, vol.340
, pp. 83-95
-
-
Bonati, L.1
Fraschini, E.2
Lasagni, M.3
Palma Modoni, E.4
Pitea, D.5
-
67
-
-
0242417008
-
Interactions with aromatic rings in chemical and biological recognition
-
Meyer, E. A., Castellano, R. K., and Diederich, F. (2003) Interactions with aromatic rings in chemical and biological recognition, Angew. Chem., Int. Ed. 42, 1210-1250.
-
(2003)
Angew. Chem., Int. Ed
, vol.42
, pp. 1210-1250
-
-
Meyer, E.A.1
Castellano, R.K.2
Diederich, F.3
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