-
1
-
-
0027905034
-
Molecular mechanism of transcription-repair coupling
-
Selby, C.P. & Sancar, A. Molecular mechanism of transcription-repair coupling. Science 260, 53-58 (1993).
-
(1993)
Science
, vol.260
, pp. 53-58
-
-
Selby, C.P.1
Sancar, A.2
-
2
-
-
0028969976
-
Structure and function of transcription-repair coupling factor. I. Structural domains and binding properties
-
Selby, C.P. & Sancar, A. Structure and function of transcription-repair coupling factor. I. Structural domains and binding properties. J. Biol. Chem. 270, 4882-4889 (1995).
-
(1995)
J. Biol. Chem.
, vol.270
, pp. 4882-4889
-
-
Selby, C.P.1
Sancar, A.2
-
3
-
-
56749157389
-
Transcription-coupled DNA repair: Two decades of progress and surprises
-
Hanawalt, P.C. & Spivak, G. Transcription-coupled DNA repair: two decades of progress and surprises. Nat. Rev. Mol. Cell Biol. 9, 958-970 (2008).
-
(2008)
Nat. Rev. Mol. Cell Biol.
, vol.9
, pp. 958-970
-
-
Hanawalt, P.C.1
Spivak, G.2
-
4
-
-
0037077154
-
E. Coli transcription repair coupling factor (Mfd protein) rescues arrested complexes by promoting forward translocation
-
Park, J.-S., Marr, M.T. & Roberts, J.W. E. coli transcription repair coupling factor (Mfd protein) rescues arrested complexes by promoting forward translocation. Cell 109, 757-767 (2002).
-
(2002)
Cell
, vol.109
, pp. 757-767
-
-
Park, J.-S.1
Marr, M.T.2
Roberts, J.W.3
-
5
-
-
32044436258
-
Structural basis for bacterial transcription-coupled DNA repair
-
Deaconescu, A.M. et al. Structural basis for bacterial transcription-coupled DNA repair. Cell 124, 507-520 (2006).
-
(2006)
Cell
, vol.124
, pp. 507-520
-
-
Deaconescu, A.M.1
-
6
-
-
29144437721
-
Structural basis for transcription-coupled repair: The N terminus of Mfd resembles UvrB with degenerate ATPase motifs
-
Assenmacher, N., Wenig, K., Lammens, A. & Hopfner, K.-P. Structural basis for transcription-coupled repair: the N terminus of Mfd resembles UvrB with degenerate ATPase motifs. J. Mol. Biol. 355, 675-683 (2006).
-
(2006)
J. Mol. Biol.
, vol.355
, pp. 675-683
-
-
Assenmacher, N.1
Wenig, K.2
Lammens, A.3
Hopfner, K.-P.4
-
7
-
-
84862777426
-
Structure and mechanism of the UvrA-UvrB DNA damage sensor
-
Pakotiprapha, D., Samuels, M., Shen, K., Hu, J.H. & Jeruzalmi, D. Structure and mechanism of the UvrA-UvrB DNA damage sensor. Nat. Struct. Mol. Biol. 19, 291-298 (2012).
-
(2012)
Nat. Struct. Mol. Biol.
, vol.19
, pp. 291-298
-
-
Pakotiprapha, D.1
Samuels, M.2
Shen, K.3
Hu, J.H.4
Jeruzalmi, D.5
-
8
-
-
0031046795
-
Formation of DNA repair intermediates and incision by the ATP-dependent UvrB-UvrC endonuclease
-
Zou, Y., Walker, R., Bassett, H., Geacintov, N.E. & Van Houten, B. Formation of DNA repair intermediates and incision by the ATP-dependent UvrB-UvrC endonuclease. J. Biol. Chem. 272, 4820-4827 (1997).
-
(1997)
J. Biol. Chem.
, vol.272
, pp. 4820-4827
-
-
Zou, Y.1
Walker, R.2
Bassett, H.3
Geacintov, N.E.4
Van Houten, B.5
-
9
-
-
0026595890
-
Post-incision steps of nucleotide excision repair in Escherichia coli: Disassembly of the UvrBC-DNA complex by helicase II and DNA polymerase i
-
Orren, D.K., Selby, C.P., Hearst, J.E. & Sancar, A. Post-incision steps of nucleotide excision repair in Escherichia coli: disassembly of the UvrBC-DNA complex by helicase II and DNA polymerase I. J. Biol. Chem. 267, 780-788 (1992).
-
(1992)
J. Biol. Chem.
, vol.267
, pp. 780-788
-
-
Orren, D.K.1
Selby, C.P.2
Hearst, J.E.3
Sancar, A.4
-
10
-
-
78650415624
-
Structural basis for the bacterial transcription-repair coupling factor/RNA polymerase interaction
-
Westblade, L.F. et al. Structural basis for the bacterial transcription-repair coupling factor/RNA polymerase interaction. Nucleic Acids Res. 38, 8357-8369 (2010).
-
(2010)
Nucleic Acids Res.
, vol.38
, pp. 8357-8369
-
-
Westblade, L.F.1
-
11
-
-
34247859353
-
Controlling the motor activity of a transcription-repair coupling factor: Autoinhibition and the role of RNA polymerase
-
Smith, A.J., Szczelkun, M.D. & Savery, N.J. Controlling the motor activity of a transcription-repair coupling factor: autoinhibition and the role of RNA polymerase. Nucleic Acids Res. 35, 1802-1811 (2007).
-
(2007)
Nucleic Acids Res.
, vol.35
, pp. 1802-1811
-
-
Smith, A.J.1
Szczelkun, M.D.2
Savery, N.J.3
-
12
-
-
34347332162
-
The molecular mechanism of transcription-coupled DNA repair
-
Savery, N.J. The molecular mechanism of transcription-coupled DNA repair. Trends Microbiol. 15, 326-333 (2007).
-
(2007)
Trends Microbiol.
, vol.15
, pp. 326-333
-
-
Savery, N.J.1
-
13
-
-
84867677392
-
Initiation of transcription-coupled repair characterized at singlemolecule resolution
-
Howan, K. et al. Initiation of transcription-coupled repair characterized at singlemolecule resolution. Nature 490, 431-434 (2012).
-
(2012)
Nature
, vol.490
, pp. 431-434
-
-
Howan, K.1
-
14
-
-
84857311371
-
Mechanism of transcription initiation at an activator-dependent promoter defned by single-molecule observation
-
Friedman, L.J. & Gelles, J. Mechanism of transcription initiation at an activator-dependent promoter defned by single-molecule observation. Cell 148, 679-689 (2012).
-
(2012)
Cell
, vol.148
, pp. 679-689
-
-
Friedman, L.J.1
Gelles, J.2
-
15
-
-
84876346296
-
The helicase-like domains of type III restriction enzymes trigger long-range diffusion along DNA
-
Schwarz, F.W. et al. The helicase-like domains of type III restriction enzymes trigger long-range diffusion along DNA. Science 340, 353-356 (2013).
-
(2013)
Science
, vol.340
, pp. 353-356
-
-
Schwarz, F.W.1
-
16
-
-
84868514786
-
Single-molecule imaging reveals target-search mechanisms during DNA mismatch repair
-
Gorman, J. et al. Single-molecule imaging reveals target-search mechanisms during DNA mismatch repair. Proc. Natl. Acad. Sci. USA 109, E3074-E3083 (2012).
-
(2012)
Proc. Natl. Acad. Sci. USA
, vol.109
, pp. E3074-E3083
-
-
Gorman, J.1
-
17
-
-
33751212468
-
Initial transcription by RNA polymerase proceeds through a DNA-scrunching mechanism
-
Kapanidis, A.N. et al. Initial transcription by RNA polymerase proceeds through a DNA-scrunching mechanism. Science 314, 1144-1147 (2006).
-
(2006)
Science
, vol.314
, pp. 1144-1147
-
-
Kapanidis, A.N.1
-
18
-
-
84896512652
-
Stalled transcription complexes promote DNA repair at a distance
-
Haines, N.M., Kim, Y.I., Smith, A.J. & Savery, N.J. Stalled transcription complexes promote DNA repair at a distance. Proc. Natl. Acad. Sci. USA 111, 4037-4042 (2014).
-
(2014)
Proc. Natl. Acad. Sci. USA
, vol.111
, pp. 4037-4042
-
-
Haines, N.M.1
Kim, Y.I.2
Smith, A.J.3
Savery, N.J.4
-
19
-
-
67650391229
-
Mechanical characterization of protein L in the low-force regime by electromagnetic tweezers/ evanescent nanometry
-
Liu, R., Garcia-Manves, S., Sarkar, A., Badilla, C.L. & Fernandez, J.M. Mechanical characterization of protein L in the low-force regime by electromagnetic tweezers/ evanescent nanometry. Biophys. J. 96, 3810-3821 (2009).
-
(2009)
Biophys. J.
, vol.96
, pp. 3810-3821
-
-
Liu, R.1
Garcia-Manves, S.2
Sarkar, A.3
Badilla, C.L.4
Fernandez, J.M.5
-
20
-
-
84855795765
-
Scanning evanescent felds using a pointlike light source and a nanomechanical DNA gear
-
Brutzer, H., Schwarz, F.W. & Seidel, R. Scanning evanescent felds using a pointlike light source and a nanomechanical DNA gear. Nano Lett. 12, 473-478 (2012).
-
(2012)
Nano Lett.
, vol.12
, pp. 473-478
-
-
Brutzer, H.1
Schwarz, F.W.2
Seidel, R.3
-
21
-
-
0029937922
-
The elasticity of a single supercoiled DNA molecule
-
Strick, T.R., Allemand, J.F., Bensimon, D., Bensimon, A. & Croquette, V. The elasticity of a single supercoiled DNA molecule. Science 271, 1835-1837 (1996).
-
(1996)
Science
, vol.271
, pp. 1835-1837
-
-
Strick, T.R.1
Allemand, J.F.2
Bensimon, D.3
Bensimon, A.4
Croquette, V.5
-
22
-
-
18344386476
-
Structural transitions of a twisted and stretched DNA molecule
-
Léger, J.F. et al. Structural transitions of a twisted and stretched DNA molecule. Phys. Rev. Lett. 83, 1066-1069 (1999).
-
(1999)
Phys. Rev. Lett.
, vol.83
, pp. 1066-1069
-
-
Léger, J.F.1
-
23
-
-
61349129512
-
Measurement of the torque on a single stretched and twisted DNA using magnetic tweezers
-
Mosconi, F. , Allemand, J.-F., Bensimon, D. & Croquette, V. Measurement of the torque on a single stretched and twisted DNA using magnetic tweezers. Phys. Rev. Lett. 102, 078301 (2009).
-
(2009)
Phys. Rev. Lett.
, vol.102
, pp. 078301
-
-
Mosconi, F.1
Allemand, J.-F.2
Bensimon, D.3
Croquette, V.4
-
24
-
-
13844317928
-
RNA polymerase mutants defective in the initiation of transcription-coupled DNA repair
-
Smith, A.J. & Savery, N.J. RNA polymerase mutants defective in the initiation of transcription-coupled DNA repair. Nucleic Acids Res. 33, 755-764 (2005).
-
(2005)
Nucleic Acids Res.
, vol.33
, pp. 755-764
-
-
Smith, A.J.1
Savery, N.J.2
-
25
-
-
70350643700
-
An N-terminal clamp restrains the motor domains of the bacterial transcription-repair coupling factor Mfd
-
Murphy, M.N. et al. An N-terminal clamp restrains the motor domains of the bacterial transcription-repair coupling factor Mfd. Nucleic Acids Res. 37, 6042-6053 (2009).
-
(2009)
Nucleic Acids Res.
, vol.37
, pp. 6042-6053
-
-
Murphy, M.N.1
-
26
-
-
28544432440
-
Direct observation of base-pair stepping by RNA polymerase
-
Abbondanzieri, E.A., Greenleaf, W.J., Shaevitz, J.W., Landick, R. & Block, S.M. Direct observation of base-pair stepping by RNA polymerase. Nature 438, 460-465 (2005).
-
(2005)
Nature
, vol.438
, pp. 460-465
-
-
Abbondanzieri, E.A.1
Greenleaf, W.J.2
Shaevitz, J.W.3
Landick, R.4
Block, S.M.5
-
27
-
-
84879682825
-
Transcription under torsion
-
Ma, J., Bai, L. & Wang, M.D. Transcription under torsion. Science 340, 1580-1583 (2013).
-
(2013)
Science
, vol.340
, pp. 1580-1583
-
-
Ma, J.1
Bai, L.2
Wang, M.D.3
-
28
-
-
0028949551
-
Structure and function of transcription-repair coupling factor. II. Catalytic properties
-
Selby, C.P. & Sancar, A. Structure and function of transcription-repair coupling factor. II. Catalytic properties. J. Biol. Chem. 270, 4890-4895 (1995).
-
(1995)
J. Biol. Chem.
, vol.270
, pp. 4890-4895
-
-
Selby, C.P.1
Sancar, A.2
-
29
-
-
0019459425
-
Identifcation of the uvrA gene product
-
Sancar, A. et al. Identifcation of the uvrA gene product. J. Mol. Biol. 148, 45-62 (1981).
-
(1981)
J. Mol. Biol.
, vol.148
, pp. 45-62
-
-
Sancar, A.1
-
30
-
-
0019480595
-
Identifcation of the uvrB gene product
-
Sancar, A., Clarke, N.D., Griswold, J., Kennedy, W.J. & Rupp, W.D. Identifcation of the uvrB gene product. J. Mol. Biol. 148, 63-76 (1981).
-
(1981)
J. Mol. Biol.
, vol.148
, pp. 63-76
-
-
Sancar, A.1
Clarke, N.D.2
Griswold, J.3
Kennedy, W.J.4
Rupp, W.D.5
-
31
-
-
84864817904
-
PaxDb, a database of protein abundance averages across all three domains of life
-
Wang, M. et al. PaxDb, a database of protein abundance averages across all three domains of life. Mol. Cell. Proteomics 11, 492-500 (2012).
-
(2012)
Mol. Cell. Proteomics
, vol.11
, pp. 492-500
-
-
Wang, M.1
-
32
-
-
84892610198
-
UvrD facilitates DNA repair by pulling RNA polymerase backwards
-
Epshtein, V. et al. UvrD facilitates DNA repair by pulling RNA polymerase backwards. Nature 505, 372-377 (2014).
-
(2014)
Nature
, vol.505
, pp. 372-377
-
-
Epshtein, V.1
-
33
-
-
84923281143
-
Structural basis for transcription reactivation by RapA
-
Liu, B., Zuo, Y. & Steitz, T.A. Structural basis for transcription reactivation by RapA. Proc. Natl. Acad. Sci. USA 112, 2006-2010 (2015).
-
(2015)
Proc. Natl. Acad. Sci. USA
, vol.112
, pp. 2006-2010
-
-
Liu, B.1
Zuo, Y.2
Steitz, T.A.3
-
34
-
-
1842788676
-
Promoter unwinding and promoter clearance by RNA polymerase: Detection by single-molecule DNA nanomanipulation
-
Revyakin, A., Ebright, R.H. & Strick, T.R. Promoter unwinding and promoter clearance by RNA polymerase: detection by single-molecule DNA nanomanipulation. Proc. Natl. Acad. Sci. USA 101, 4776-4780 (2004).
-
(2004)
Proc. Natl. Acad. Sci. USA
, vol.101
, pp. 4776-4780
-
-
Revyakin, A.1
Ebright, R.H.2
Strick, T.R.3
-
35
-
-
33751218319
-
Abortive initiation and productive initiation by RNA polymerase involve DNA scrunching
-
Revyakin, A., Liu, C.-Y., Ebright, R.H. & Strick, T.R. Abortive initiation and productive initiation by RNA polymerase involve DNA scrunching. Science 314, 1139-1143 (2006).
-
(2006)
Science
, vol.314
, pp. 1139-1143
-
-
Revyakin, A.1
Liu, C.-Y.2
Ebright, R.H.3
Strick, T.R.4
-
36
-
-
0035191283
-
Recombinant Thermus aquaticus RNA polymerase, a new tool for structure-based analysis of transcription
-
Minakhin, L., Nechaev, S., Campbell, E.A. & Severinov, K. Recombinant Thermus aquaticus RNA polymerase, a new tool for structure-based analysis of transcription. J. Bacteriol. 183, 71-76 (2001).
-
(2001)
J. Bacteriol.
, vol.183
, pp. 71-76
-
-
Minakhin, L.1
Nechaev, S.2
Campbell, E.A.3
Severinov, K.4
-
37
-
-
23644449865
-
Single-molecule DNA nanomanipulation: Improved resolution through use of shorter DNA fragments
-
Revyakin, A., Ebright, R.H. & Strick, T.R. Single-molecule DNA nanomanipulation: improved resolution through use of shorter DNA fragments. Nat. Methods 2, 127-138 (2005).
-
(2005)
Nat. Methods
, vol.2
, pp. 127-138
-
-
Revyakin, A.1
Ebright, R.H.2
Strick, T.R.3
-
38
-
-
32044461391
-
Crystallization and preliminary structure determination of Escherichia coli Mfd, the transcription-repair coupling factor
-
Deaconescu, A.M. & Darst, S.A. Crystallization and preliminary structure determination of Escherichia coli Mfd, the transcription-repair coupling factor. Acta Crystallogr. Sect. F Struct. Biol. Cryst. Commun. 61, 1062-1064 (2005).
-
(2005)
Acta Crystallogr. Sect. F Struct. Biol. Cryst. Commun.
, vol.61
, pp. 1062-1064
-
-
Deaconescu, A.M.1
Darst, S.A.2
-
39
-
-
83255167029
-
Structural basis for promoter -10 element recognition by the bacterial RNA polymerase sigma subunit
-
Feklistov, A. & Darst, S.A. Structural basis for promoter -10 element recognition by the bacterial RNA polymerase sigma subunit. Cell 147, 1257-1269 (2011).
-
(2011)
Cell
, vol.147
, pp. 1257-1269
-
-
Feklistov, A.1
Darst, S.A.2
-
40
-
-
0033551770
-
Mapping interactions of Escherichia coli GreB with RNA polymerase and ternary elongation complexes
-
Loizos, N. & Darst, S.A. Mapping interactions of Escherichia coli GreB with RNA polymerase and ternary elongation complexes. J. Biol. Chem. 274, 23378-23386 (1999).
-
(1999)
J. Biol. Chem.
, vol.274
, pp. 23378-23386
-
-
Loizos, N.1
Darst, S.A.2
-
41
-
-
0030972676
-
Domain organization of Escherichia coli transcript cleavage factors GreA and GreB
-
Koulich, D. et al. Domain organization of Escherichia coli transcript cleavage factors GreA and GreB. J. Biol. Chem. 272, 7201-7210 (1997).
-
(1997)
J. Biol. Chem.
, vol.272
, pp. 7201-7210
-
-
Koulich, D.1
|