-
1
-
-
0020510997
-
Free energy coupling within macromolecules. The chemical work of ligand binding at individual sites in co-operative systems
-
Ackers GK, Shea MA, Smith FR (1983) Free energy coupling within macromolecules. The chemical work of ligand binding at individual sites in co-operative systems. J Mol Biol 170: 223-242
-
(1983)
J Mol Biol
, vol.170
, pp. 223-242
-
-
Ackers, G.K.1
Shea, M.A.2
Smith, F.R.3
-
2
-
-
0035853690
-
High-affinity interaction of yeast transcriptional regulator, Mot1, with TATA Box-binding protein (TBP)
-
Adamkewicz JI, Hansen KE, Prud'homme WA, Davis JL, Thorner J (2001) High-affinity interaction of yeast transcriptional regulator, Mot1, with TATA Box-binding protein (TBP). J Biol Chem 276: 11883-11984
-
(2001)
J Biol Chem
, vol.276
, pp. 11883-11984
-
-
Adamkewicz, J.I.1
Hansen, K.E.2
Prud'Homme, W.A.3
Davis, J.L.4
Thorner, J.5
-
3
-
-
0034647509
-
Purification and enzymic properties of Mot1 ATPase, a regulator of basal transcription in the yeast Saccharomyces cerevisiae
-
Adamkewicz JI, Mueller CGF, Hansen KE, Prud'homme WA, Thorner J (2000) Purification and enzymic properties of Mot1 ATPase, a regulator of basal transcription in the yeast Saccharomyces cerevisiae. J Biol Chem 275: 21158-21168
-
(2000)
J Biol Chem
, vol.275
, pp. 21158-21168
-
-
Adamkewicz, J.I.1
Mueller, C.G.F.2
Hansen, K.E.3
Prud'homme, W.A.4
Thorner, J.5
-
4
-
-
0036791576
-
Mot1p is essential for TBP recruitment to selected promoters during in vivo gene activation
-
Andrau J-C, Van Oevelen CJC, Van Teeffelen HAAM, Weil PA, Holstege FCP, Timmers HTM (2002) Mot1p is essential for TBP recruitment to selected promoters during in vivo gene activation. EMBO J 21: 5173-5183
-
(2002)
EMBO J
, vol.21
, pp. 5173-5183
-
-
Andrau, J.-C.1
Van Oevelen, C.J.C.2
Van Teeffelen, H.A.A.M.3
Weil, P.A.4
Holstege, F.C.P.5
Timmers, H.T.M.6
-
5
-
-
0027191870
-
An ATP-dependent inhibitor of TBP binding to DNA
-
Auble DT, Hahn S (1993) An ATP-dependent inhibitor of TBP binding to DNA. Genes Dev 7: 844-856
-
(1993)
Genes Dev
, vol.7
, pp. 844-856
-
-
Auble, D.T.1
Hahn, S.2
-
6
-
-
0032927875
-
Testing for DNA tracking by MOT1, a SNF2/SWI2 protein family member
-
Auble DT, Steggerda SM (1999) Testing for DNA tracking by MOT1, a SNF2/SWI2 protein family member. Mol Cell Biol 19: 412-423
-
(1999)
Mol Cell Biol
, vol.19
, pp. 412-423
-
-
Auble, D.T.1
Steggerda, S.M.2
-
7
-
-
0028038315
-
Mot1, a global repressor of rna polymerase II transcription, inhibits TBP binding to DNA by an ATP-dependent mechanism
-
Auble DT, Hansen KE, Mueller CGF, Lane WS, Thorner J, Hahn S (1994) Mot1, a global repressor of rna polymerase II transcription, inhibits TBP binding to DNA by an ATP-dependent mechanism. Genes Dev 8: 1920-1934
-
(1994)
Genes Dev
, vol.8
, pp. 1920-1934
-
-
Auble, D.T.1
Hansen, K.E.2
Mueller, C.G.F.3
Lane, W.S.4
Thorner, J.5
Hahn, S.6
-
8
-
-
0030835671
-
Molecular analysis of the SNF2/SWI2 protein family member MOT1, an ATP-driven enzyme that dissociates TATA-binding protein from DNA
-
Auble DT, Wang D, Post KW, Hahn S (1997) Molecular analysis of the SNF2/SWI2 protein family member MOT1, an ATP-driven enzyme that dissociates TATA-binding protein from DNA. Mol Cell Biol 17: 4842-4851
-
(1997)
Mol Cell Biol
, vol.17
, pp. 4842-4851
-
-
Auble, D.T.1
Wang, D.2
Post, K.W.3
Hahn, S.4
-
9
-
-
0035997356
-
ATP-dependent nucleosome remodeling
-
Becker PB, Horz W (2002) ATP-dependent nucleosome remodeling. Ann Rev Biochem 71: 247-273
-
(2002)
Ann Rev Biochem
, vol.71
, pp. 247-273
-
-
Becker, P.B.1
Horz, W.2
-
10
-
-
0022437260
-
Quantitative DNase footprint titration: A method for studying protein-DNA interactions
-
Brenowitz M, Senear DF, Shea MA, Ackers GK (1986) Quantitative DNase footprint titration: a method for studying protein-DNA interactions. Methods Enzymol 130: 132-181
-
(1986)
Methods Enzymol
, vol.130
, pp. 132-181
-
-
Brenowitz, M.1
Senear, D.F.2
Shea, M.A.3
Ackers, G.K.4
-
11
-
-
0029860453
-
The NOT, SPT3, and MOT1 genes functionally interact to regulate transcription at core promoters
-
Collart MA (1996) The NOT, SPT3, and MOT1 genes functionally interact to regulate transcription at core promoters. Mol Cell Biol 16: 6668-6676
-
(1996)
Mol Cell Biol
, vol.16
, pp. 6668-6676
-
-
Collart, M.A.1
-
12
-
-
0037494893
-
Mot1 regulates the DNA binding activity of free TATA-binding protein in an ATP-dependent manner
-
Darst RP, Dasgupta A, Zhu C, Hsu J-Y, Vroom A, Muldrow TA, Auble DT (2003) Mot1 regulates the DNA binding activity of free TATA-binding protein in an ATP-dependent manner. J Biol Chem 278: 13216-13226
-
(2003)
J Biol Chem
, vol.278
, pp. 13216-13226
-
-
Darst, R.P.1
Dasgupta, A.2
Zhu, C.3
Hsu, J.-Y.4
Vroom, A.5
Muldrow, T.A.6
Auble, D.T.7
-
13
-
-
0035901527
-
Mot1-catalyzed TBP-DNA disruption: Uncoupling DNA conformational change and role of upstream DNA
-
Darst RP, Wang D, Auble DT (2001) Mot1-catalyzed TBP-DNA disruption: uncoupling DNA conformational change and role of upstream DNA. EMBO J 20: 2028-2040
-
(2001)
EMBO J
, vol.20
, pp. 2028-2040
-
-
Darst, R.P.1
Wang, D.2
Auble, D.T.3
-
14
-
-
13944278373
-
SAFA: Semi-automated footprinting analysis software for high-throughput quantification of nucleic acid footprinting experiments
-
Das R, Laederach A, Perlman SM, Herschlag D, Altman RB (2005) SAFA: semi-automated footprinting analysis software for high-throughput quantification of nucleic acid footprinting experiments. RNA 11: 344-354
-
(2005)
RNA
, vol.11
, pp. 344-354
-
-
Das, R.1
Laederach, A.2
Perlman, S.M.3
Herschlag, D.4
Altman, R.B.5
-
15
-
-
0037022595
-
Mot1 activates and represses transcription by direct, ATPase-dependent mechanisms
-
Dasgupta A, Darst RP, Martin KJ, Afshari CA, Auble DT (2002) Mot1 activates and represses transcription by direct, ATPase-dependent mechanisms. Proc Natl Acad Sci USA 99: 2666-2671
-
(2002)
Proc Natl Acad Sci USA
, vol.99
, pp. 2666-2671
-
-
Dasgupta, A.1
Darst, R.P.2
Martin, K.J.3
Afshari, C.A.4
Auble, D.T.5
-
16
-
-
18944372568
-
Mot1-mediated control of transcription complex assembly and activity
-
Dasgupta A, Juedes SA, Sprouse RO, Auble DT (2005) Mot1-mediated control of transcription complex assembly and activity. EMBO J 24: 1717-1729
-
(2005)
EMBO J
, vol.24
, pp. 1717-1729
-
-
Dasgupta, A.1
Juedes, S.A.2
Sprouse, R.O.3
Auble, D.T.4
-
17
-
-
0026538226
-
A presumptive helicase (MOT1 gene product) affects gene expression and is required for viability in the yeast Saccharomyces cerevisiae
-
Davis JL, Kunisawa R, Thorner J (1992) A presumptive helicase (MOT1 gene product) affects gene expression and is required for viability in the yeast Saccharomyces cerevisiae. Mol Cell Biol 12: 1879-1892
-
(1992)
Mol Cell Biol
, vol.12
, pp. 1879-1892
-
-
Davis, J.L.1
Kunisawa, R.2
Thorner, J.3
-
18
-
-
0036304119
-
Concerted binding and bending of DNA by Escherichia coli integration host factor
-
Dhavan GM, Crothers DM, Chance MR, Brenowtiz M (2002) Concerted binding and bending of DNA by Escherichia coli integration host factor. J Mol Biol 315: 1027-1037
-
(2002)
J Mol Biol
, vol.315
, pp. 1027-1037
-
-
Dhavan, G.M.1
Crothers, D.M.2
Chance, M.R.3
Brenowtiz, M.4
-
19
-
-
18844457346
-
X-ray structures of the Sulfolobus solfataricus SWI2/SNF2 ATPase core and its complex with DNA
-
Durr H, Korner C, Muller M, Hickmann V, Hopfner K-P (2005) X-ray structures of the Sulfolobus solfataricus SWI2/SNF2 ATPase core and its complex with DNA. Cell 121: 363-373
-
(2005)
Cell
, vol.121
, pp. 363-373
-
-
Durr, H.1
Korner, C.2
Muller, M.3
Hickmann, V.4
Hopfner, K.-P.5
-
20
-
-
0041669442
-
A tale of two polymers: New insights into helical filaments
-
Egelman EH (2003) A tale of two polymers: new insights into helical filaments. Nat Rev Mol Cell Biol 4: 621-630
-
(2003)
Nat Rev Mol Cell Biol
, vol.4
, pp. 621-630
-
-
Egelman, E.H.1
-
21
-
-
0029157378
-
Evolution of the SNF2 family of proteins: Subfamilies with distinct sequences and functions
-
Eisen JA, Sweder KS, Hanawalt PC (1995) Evolution of the SNF2 family of proteins: subfamilies with distinct sequences and functions. Nucleic Acids Res 23: 2715-2723
-
(1995)
Nucleic Acids Res
, vol.23
, pp. 2715-2723
-
-
Eisen, J.A.1
Sweder, K.S.2
Hanawalt, P.C.3
-
22
-
-
0037512311
-
Distinct strategies to make nucleosomal DNA accessible
-
Fan H-Y, He X, Kingston RE, Narlikar GJ (2003) Distinct strategies to make nucleosomal DNA accessible. Mol Cell 11: 1311-1322
-
(2003)
Mol Cell
, vol.11
, pp. 1311-1322
-
-
Fan, H.-Y.1
He, X.2
Kingston, R.E.3
Narlikar, G.J.4
-
23
-
-
0037388372
-
Mechanisms for nucleosome mobilization
-
Flaus A, Owen-Hughes T (2003) Mechanisms for nucleosome mobilization. Biopolymers 68: 563-578
-
(2003)
Biopolymers
, vol.68
, pp. 563-578
-
-
Flaus, A.1
Owen-Hughes, T.2
-
24
-
-
0018199224
-
DNAse footprinting: A simple method for the detection of protein-DNA binding specificity
-
Galas DJ, Schmitz A (1978) DNAse footprinting: a simple method for the detection of protein-DNA binding specificity. Nucleic Acid Res 5: 3157-3170
-
(1978)
Nucleic Acid Res
, vol.5
, pp. 3157-3170
-
-
Galas, D.J.1
Schmitz, A.2
-
25
-
-
0036889358
-
Mot1 associates with transcriptionally active promoters and inhibits association of NC2 in Saccharomyces cerevisiae
-
Geisberg JV, Moqtaderi Z, Kuras L, Struhl K (2002) Mot1 associates with transcriptionally active promoters and inhibits association of NC2 in Saccharomyces cerevisiae. Mol Cell Biol 22: 8122-8134
-
(2002)
Mol Cell Biol
, vol.22
, pp. 8122-8134
-
-
Geisberg, J.V.1
Moqtaderi, Z.2
Kuras, L.3
Struhl, K.4
-
26
-
-
0037938469
-
High-affinity DNA binding by a Mot1p-TBP complex: Implications for TAF-independent transcription
-
Gumbs OH, Campbell AM, Weil PA (2003) High-affinity DNA binding by a Mot1p-TBP complex: implications for TAF-independent transcription. EMBO J 22: 3131-3141
-
(2003)
EMBO J
, vol.22
, pp. 3131-3141
-
-
Gumbs, O.H.1
Campbell, A.M.2
Weil, P.A.3
-
27
-
-
0026665954
-
Kinetic analysis of yeast TFIID-TATA Box complex formation suggests a multi-step pathway
-
Hoopes BC, LeBlanc JF, Hawley DK (1992) Kinetic analysis of yeast TFIID-TATA Box complex formation suggests a multi-step pathway. J Biol Chem 267: 11539-11547
-
(1992)
J Biol Chem
, vol.267
, pp. 11539-11547
-
-
Hoopes, B.C.1
LeBlanc, J.F.2
Hawley, D.K.3
-
28
-
-
0037292355
-
SWI/SNF unwraps, slids, and rewraps the nucleosome
-
Kassabov SR, Zhang B, Persinger J, Bartholomew B (2003) SWI/SNF unwraps, slids, and rewraps the nucleosome. Mol Cell 11: 391-403
-
(2003)
Mol Cell
, vol.11
, pp. 391-403
-
-
Kassabov, S.R.1
Zhang, B.2
Persinger, J.3
Bartholomew, B.4
-
29
-
-
0347319181
-
Comparison of the effect of water release on the interaction of the Saccharomyces cerevisiae TATA binding protein (TBP) with 'TATA Box' sequences composed of adenosine or inosine
-
Khrapunov S, Brenowitz M (2004) Comparison of the effect of water release on the interaction of the Saccharomyces cerevisiae TATA binding protein (TBP) with 'TATA Box' sequences composed of adenosine or inosine. Biophys J 86: 371-383
-
(2004)
Biophys J
, vol.86
, pp. 371-383
-
-
Khrapunov, S.1
Brenowitz, M.2
-
30
-
-
0037199428
-
Solution structural studies of the Saccharomyces cerevisiae TATA binding protein (TBP)
-
Khrapunov S, Pastor N, Brenowitz M (2002) Solution structural studies of the Saccharomyces cerevisiae TATA binding protein (TBP). Biochemistry 41: 9559-9571
-
(2002)
Biochemistry
, vol.41
, pp. 9559-9571
-
-
Khrapunov, S.1
Pastor, N.2
Brenowitz, M.3
-
31
-
-
27144552720
-
Mutational analysis of BTAF1-TBP interaction: BTAF1 can rescue DNA-binding defective TBP mutants
-
Klejman MP, Zhao X, van Schaik FMA, Herr W, Timmers HTM (2005) Mutational analysis of BTAF1-TBP interaction: BTAF1 can rescue DNA-binding defective TBP mutants. Nucleic Acid Res 33: 5426-5436
-
(2005)
Nucleic Acid Res
, vol.33
, pp. 5426-5436
-
-
Klejman, M.P.1
Zhao, X.2
Van Schaik, F.M.A.3
Herr, W.4
Timmers, H.T.M.5
-
32
-
-
0031014943
-
Evidence that Spt3 functionally interacts with Mot1, TFIIA, and TBP to confer promoter-specific transcriptional control in Saccharomyces cerevisiae
-
Madison JM, Winston F (1996) Evidence that Spt3 functionally interacts with Mot1, TFIIA, and TBP to confer promoter-specific transcriptional control in Saccharomyces cerevisiae. Mol Cell Biol 17: 287-295
-
(1996)
Mol Cell Biol
, vol.17
, pp. 287-295
-
-
Madison, J.M.1
Winston, F.2
-
33
-
-
0029620927
-
Photocross-links between single-stranded DNA and Escherichia coli RecA protein map to loops L1 (amino acid residues 157-164) and L2 (amino acid residues 195-209)
-
Malkov VA, Camerini-Otero RD (1995) Photocross-links between single-stranded DNA and Escherichia coli RecA protein map to loops L1 (amino acid residues 157-164) and L2 (amino acid residues 195-209). J Biol Chem 270: 30230-30233
-
(1995)
J Biol Chem
, vol.270
, pp. 30230-30233
-
-
Malkov, V.A.1
Camerini-Otero, R.D.2
-
34
-
-
0026522733
-
DNA looping
-
Matthews KS (1992) DNA looping. Microbiol Rev 56: 123-136
-
(1992)
Microbiol Rev
, vol.56
, pp. 123-136
-
-
Matthews, K.S.1
-
35
-
-
33645751054
-
Quantitative DNase I kinetics footprinting
-
Travers A, Buckle M (eds), Oxford: IRL Press at Oxford University Press
-
Mollah AKMM, Brenowitz M (2000) Quantitative DNase I kinetics footprinting. In Protein-DNA Interactions - A Practical Approach, Travers A, Buckle M (eds), pp 281-290. Oxford: IRL Press at Oxford University Press
-
(2000)
Protein-DNA Interactions - A Practical Approach
, pp. 281-290
-
-
Mollah, A.K.M.M.1
Brenowitz, M.2
-
36
-
-
0037154963
-
Cooperation between complexes that regulate chromatin structure and transcription
-
Narlikar GJ, Fan H-Y, Kingston RE (2002) Cooperation between complexes that regulate chromatin structure and transcription. Cell 108: 475-487
-
(2002)
Cell
, vol.108
, pp. 475-487
-
-
Narlikar, G.J.1
Fan, H.-Y.2
Kingston, R.E.3
-
37
-
-
0141817837
-
Roles for BTAF1 and Mot1p in dynamics of TATA-binding protein and regulation of RNA polymerase ii transcription
-
Pereira LA, Klejman MP, Timmers HTM (2003) Roles for BTAF1 and Mot1p in dynamics of TATA-binding protein and regulation of RNA polymerase ii transcription. Gene 315: 1-13
-
(2003)
Gene
, vol.315
, pp. 1-13
-
-
Pereira, L.A.1
Klejman, M.P.2
Timmers, H.T.M.3
-
38
-
-
0034785593
-
TAF (II) 170 interacts with the concave surface of TATA-binding protein to inhibit its DNA binding activity
-
Pereira LA, van der Knaap JA, van den Boom V, van den Heuvel FA, Timmers HT (2001) TAF (II) 170 interacts with the concave surface of TATA-binding protein to inhibit its DNA binding activity. Mol Cell Biol 21: 7523-7534
-
(2001)
Mol Cell Biol
, vol.21
, pp. 7523-7534
-
-
Pereira, L.A.1
Van Der Knaap, J.A.2
Van Den Boom, V.3
Van Den Heuvel, F.A.4
Timmers, H.T.5
-
39
-
-
0028070378
-
Yeast Taf170 is encoded by MOT1 and exists in a TBP-TAF complex distinct from TFIID
-
Poon D, Campbell AM, Bai Y, Weil PA (1994) Yeast Taf170 is encoded by MOT1 and exists in a TBP-TAF complex distinct from TFIID. J Biol Chem 269: 23135-23140
-
(1994)
J Biol Chem
, vol.269
, pp. 23135-23140
-
-
Poon, D.1
Campbell, A.M.2
Bai, Y.3
Weil, P.A.4
-
40
-
-
0030971399
-
Saccharomyces cerevisiae BUR6 encodes a DRAP1/NC2alpha homolog that has both positive and negative roles in transcription in vivo
-
Prelich G (1997) Saccharomyces cerevisiae BUR6 encodes a DRAP1/NC2alpha homolog that has both positive and negative roles in transcription in vivo. Mol Cell Biol 17: 2057-2065
-
(1997)
Mol Cell Biol
, vol.17
, pp. 2057-2065
-
-
Prelich, G.1
-
42
-
-
0345269999
-
Solution structure and interdomain interactions of the Saccharomyces cerevisiae 'TATA binding protein' (TBP) probed by radiolytic protein footprinting
-
Rashidzadeh H, Khrapunov S, Chance MR, Brenowitz M (2003) Solution structure and interdomain interactions of the Saccharomyces cerevisiae 'TATA binding protein' (TBP) probed by radiolytic protein footprinting. Biochemistry 42: 3655-3665
-
(2003)
Biochemistry
, vol.42
, pp. 3655-3665
-
-
Rashidzadeh, H.1
Khrapunov, S.2
Chance, M.R.3
Brenowitz, M.4
-
43
-
-
0025848742
-
Dominant negative mutations in yeast TFIID define a bipartite DNA-binding region
-
Reddy P, Hahn S (1991) Dominant negative mutations in yeast TFIID define a bipartite DNA-binding region. Cell 65: 349-357
-
(1991)
Cell
, vol.65
, pp. 349-357
-
-
Reddy, P.1
Hahn, S.2
-
44
-
-
4544266390
-
Spatial contacts and nucleosome step movements induced by the NURF chromatin remodeling complex
-
Schwanbeck R, Xiao H, Wu C (2004) Spatial contacts and nucleosome step movements induced by the NURF chromatin remodeling complex. J Biol Chem 279: 3993-39941
-
(2004)
J Biol Chem
, vol.279
, pp. 3993-39941
-
-
Schwanbeck, R.1
Xiao, H.2
Wu, C.3
-
45
-
-
21744434032
-
A conserved Swi2/Snf2 ATPase motif couples ATP hydrolysis to chromatin remodeling
-
Smith CL, Peterson CL (2005) A conserved Swi2/Snf2 ATPase motif couples ATP hydrolysis to chromatin remodeling. Mol Cell Biol 25: 5880-5892
-
(2005)
Mol Cell Biol
, vol.25
, pp. 5880-5892
-
-
Smith, C.L.1
Peterson, C.L.2
-
46
-
-
4344590128
-
Semi-automated, single-band peak-fitting analysis of hydroxyl radical nucleic acid footprint autoradiograms for the quantitative analysis of transitions
-
Takamoto K, Chance MR, Brenowitz M (2004) Semi-automated, single-band peak-fitting analysis of hydroxyl radical nucleic acid footprint autoradiograms for the quantitative analysis of transitions. Nucleic Acid Res 32: E119
-
(2004)
Nucleic Acid Res
, vol.32
-
-
Takamoto, K.1
Chance, M.R.2
Brenowitz, M.3
-
47
-
-
18744364437
-
Structure of the SWI2/SNF2 chromatin-remodeling domain of Rad54
-
Thoma NH, Czyzewski BK, Alexeev AA, Mazin AV, Kowalczykowski SC, Pavletich NP (2005) Structure of the SWI2/SNF2 chromatin-remodeling domain of Rad54. Nat Struct Mol Biol 12: 350-356
-
(2005)
Nat Struct Mol Biol
, vol.12
, pp. 350-356
-
-
Thoma, N.H.1
Czyzewski, B.K.2
Alexeev, A.A.3
Mazin, A.V.4
Kowalczykowski, S.C.5
Pavletich, N.P.6
-
48
-
-
0033515425
-
Crystal structures of complexes of PcrA DNA helicase with a DNA substrate indicate an inchworm mechanism
-
Velankar SS, Soultanas P, Dillingham MS, Subramanya HS, Wigley DB (1999) Crystal structures of complexes of PcrA DNA helicase with a DNA substrate indicate an inchworm mechanism. Cell 97: 75-84
-
(1999)
Cell
, vol.97
, pp. 75-84
-
-
Velankar, S.S.1
Soultanas, P.2
Dillingham, M.S.3
Subramanya, H.S.4
Wigley, D.B.5
|