-
1
-
-
0016639257
-
Activation of transcription by guanosine 5′-diphosphate,3′- diphosphate, transfer ribonucleic acid, and novel protein from Escherichia coli
-
Aboud M., Pastan I. Activation of transcription by guanosine 5′-diphosphate,3′-diphosphate, transfer ribonucleic acid, and novel protein from Escherichia coli. J. Biol. Chem. 250:1975;2189-2195
-
(1975)
J. Biol. Chem.
, vol.250
, pp. 2189-2195
-
-
Aboud, M.1
Pastan, I.2
-
2
-
-
0037133970
-
The transcriptional regulator RfaH stimulates RNA chain synthesis after recruitment to elongation complexes by the exposed nontemplate DNA strand
-
Artsimovitch I., Landick R. The transcriptional regulator RfaH stimulates RNA chain synthesis after recruitment to elongation complexes by the exposed nontemplate DNA strand. Cell. 109:2002;193-203
-
(2002)
Cell
, vol.109
, pp. 193-203
-
-
Artsimovitch, I.1
Landick, R.2
-
3
-
-
0033765116
-
RNA polymerases from Bacillus subtilis and Escherichia coli differ in recognition of regulatory signals in vitro
-
Artsimovitch I., Svetlov V., Anthony L., Burgess R.R., Landick R. RNA polymerases from Bacillus subtilis and Escherichia coli differ in recognition of regulatory signals in vitro. J. Bacteriol. 182:2000;6027-6035
-
(2000)
J. Bacteriol.
, vol.182
, pp. 6027-6035
-
-
Artsimovitch, I.1
Svetlov, V.2
Anthony, L.3
Burgess, R.R.4
Landick, R.5
-
4
-
-
2042475439
-
Structural basis for transcription regulation by alarmone ppGpp
-
Artsimovitch I., Patlan V., Sekine S., Vassylyeva M.N., Hosaka T., Ochi K., Yokoyama S., Vassylyev D.G. Structural basis for transcription regulation by alarmone ppGpp. Cell. 117:2004;299-310
-
(2004)
Cell
, vol.117
, pp. 299-310
-
-
Artsimovitch, I.1
Patlan, V.2
Sekine, S.3
Vassylyeva, M.N.4
Hosaka, T.5
Ochi, K.6
Yokoyama, S.7
Vassylyev, D.G.8
-
5
-
-
0029670766
-
Multicopy suppressors of prc mutant Escherichia coli include two HtrA (DegP) protease homologs (HhoAB), DksA, and a truncated R1pA
-
Bass S., Gu Q., Christen A. Multicopy suppressors of prc mutant Escherichia coli include two HtrA (DegP) protease homologs (HhoAB), DksA, and a truncated R1pA. J. Bacteriol. 178:1996;1154-1161
-
(1996)
J. Bacteriol.
, vol.178
, pp. 1154-1161
-
-
Bass, S.1
Gu, Q.2
Christen, A.3
-
6
-
-
0027536870
-
Transcript cleavage factors from E. coli
-
Borukhov S., Sagitov V., Goldfarb A. Transcript cleavage factors from E. coli. Cell. 72:1993;459-466
-
(1993)
Cell
, vol.72
, pp. 459-466
-
-
Borukhov, S.1
Sagitov, V.2
Goldfarb, A.3
-
7
-
-
0036331056
-
DksA affects ppGpp induction of RpoS at a translational level
-
Brown L., Gentry D., Elliott T., Cashel M. DksA affects ppGpp induction of RpoS at a translational level. J. Bacteriol. 184:2002;4455-4465
-
(2002)
J. Bacteriol.
, vol.184
, pp. 4455-4465
-
-
Brown, L.1
Gentry, D.2
Elliott, T.3
Cashel, M.4
-
8
-
-
3543012707
-
Crystallography & NMR system: A new software suite for macromolecular structure determination
-
Brunger A.T., Adams P.D., Clore G.M., DeLano W.L., Gros P., Grosse-Kunstleve R.W., Jiang J.S., Kuszewski J., Nilges M., Pannu N.S., et al. Crystallography & NMR system. A new software suite for macromolecular structure determination Acta Crystallogr. D54:1998;905-921
-
(1998)
Acta Crystallogr.
, vol.54
, pp. 905-921
-
-
Brunger, A.T.1
Adams, P.D.2
Clore, G.M.3
Delano, W.L.4
Gros, P.5
Grosse-Kunstleve, R.W.6
Jiang, J.S.7
Kuszewski, J.8
Nilges, M.9
Pannu, N.S.10
-
9
-
-
0014478832
-
Two compounds implicated in the function of the RC gene of Escherichia coli
-
Cashel M., Gallant J. Two compounds implicated in the function of the RC gene of Escherichia coli. Nature. 221:1969;838-841
-
(1969)
Nature
, vol.221
, pp. 838-841
-
-
Cashel, M.1
Gallant, J.2
-
10
-
-
0034629139
-
The study of guanosine 5′-diphosphate 3′-diphosphate-mediated transcription regulation in vitro using a coupled transcription-translation system
-
Choy H.E. The study of guanosine 5′-diphosphate 3′-diphosphate-mediated transcription regulation in vitro using a coupled transcription-translation system. J. Biol. Chem. 275:2000;6783-6789
-
(2000)
J. Biol. Chem.
, vol.275
, pp. 6783-6789
-
-
Choy, H.E.1
-
11
-
-
0028103275
-
The CCP4 (Collaborative Computational Project Number 4) suite: Programs for protein crystallography
-
CCP4 The CCP4 (Collaborative Computational Project Number 4) suite. programs for protein crystallography Acta Crystallogr. D. Biol. Crystallogr. 50:1994;760-763
-
(1994)
Acta Crystallogr. D. Biol. Crystallogr.
, vol.50
, pp. 760-763
-
-
-
12
-
-
1942535198
-
RNA polymerase II structure: From core to functional complexes
-
Cramer P. RNA polymerase II structure. from core to functional complexes Curr. Opin. Genet. Dev. 14:2004;218-226
-
(2004)
Curr. Opin. Genet. Dev.
, vol.14
, pp. 218-226
-
-
Cramer, P.1
-
13
-
-
0037073048
-
Promoting elongation with transcript cleavage stimulatory factors
-
Fish R.N., Kane C.M. Promoting elongation with transcript cleavage stimulatory factors. Biochim. Biophys. Acta. 1577:2002;287-307
-
(2002)
Biochim. Biophys. Acta
, vol.1577
, pp. 287-307
-
-
Fish, R.N.1
Kane, C.M.2
-
14
-
-
0014202482
-
On the mechanism of amino acid control of ribonucleic acid biosynthesis
-
Gallant J., Cashel M. On the mechanism of amino acid control of ribonucleic acid biosynthesis. J. Mol. Biol. 25:1967;545-553
-
(1967)
J. Mol. Biol.
, vol.25
, pp. 545-553
-
-
Gallant, J.1
Cashel, M.2
-
15
-
-
0036724358
-
Role of ppGpp in rpoS stationary-phase regulation in Escherichia coli
-
Hirsch M., Elliott T. Role of ppGpp in rpoS stationary-phase regulation in Escherichia coli. J. Bacteriol. 184:2002;5077-5087
-
(2002)
J. Bacteriol.
, vol.184
, pp. 5077-5087
-
-
Hirsch, M.1
Elliott, T.2
-
16
-
-
84889120137
-
Improved methods for building protein models in electron density maps and the location of errors in these models
-
Jones T.A., Zou J.Y., Cowan S.W., Kjeldgaard M. Improved methods for building protein models in electron density maps and the location of errors in these models. Acta Crystallogr. A47:1991;110-119
-
(1991)
Acta Crystallogr.
, vol.47
, pp. 110-119
-
-
Jones, T.A.1
Zou, J.Y.2
Cowan, S.W.3
Kjeldgaard, M.4
-
17
-
-
0037609040
-
Posttranscriptional control of quorum-sensing-dependent virulence genes by DksA in Pseudomonas aeruginosa
-
Jude F., Kohler T., Branny P., Perron K., Mayer M.P., Comte R., van Delden C. Posttranscriptional control of quorum-sensing-dependent virulence genes by DksA in Pseudomonas aeruginosa. J. Bacteriol. 185:2003;3558-3566
-
(2003)
J. Bacteriol.
, vol.185
, pp. 3558-3566
-
-
Jude, F.1
Kohler, T.2
Branny, P.3
Perron, K.4
Mayer, M.P.5
Comte, R.6
Van Delden, C.7
-
18
-
-
0025266330
-
Identification and characterization of a new Escherichia coli gene that is a dosage-dependent suppressor of a dnaK deletion mutation
-
Kang P.J., Craig E.A. Identification and characterization of a new Escherichia coli gene that is a dosage-dependent suppressor of a dnaK deletion mutation. J. Bacteriol. 172:1990;2055-2064
-
(1990)
J. Bacteriol.
, vol.172
, pp. 2055-2064
-
-
Kang, P.J.1
Craig, E.A.2
-
19
-
-
0043244876
-
Architecture of the RNA polymerase II-TFIIS complex and implications for mRNA cleavage
-
Kettenberger H., Armache K.J., Cramer P. Architecture of the RNA polymerase II-TFIIS complex and implications for mRNA cleavage. Cell. 114:2003;347-357
-
(2003)
Cell
, vol.114
, pp. 347-357
-
-
Kettenberger, H.1
Armache, K.J.2
Cramer, P.3
-
20
-
-
0030972676
-
Domain organization of Escherichia coli transcript cleavage factors GreA and GreB
-
Koulich D., Orlova M., Malhotra A., Sali A., Darst S.A., Borukhov S. Domain organization of Escherichia coli transcript cleavage factors GreA and GreB. J. Biol. Chem. 272:1997;7201-7210
-
(1997)
J. Biol. Chem.
, vol.272
, pp. 7201-7210
-
-
Koulich, D.1
Orlova, M.2
Malhotra, A.3
Sali, A.4
Darst, S.A.5
Borukhov, S.6
-
21
-
-
0034725118
-
The functional role of basic patch, a structural element of Escherichia coli transcript cleavage factors GreA and GreB
-
Kulish D., Lee J., Lomakin I., Nowicka B., Das A., Darst S., Normet K., Borukhov S. The functional role of basic patch, a structural element of Escherichia coli transcript cleavage factors GreA and GreB. J. Biol. Chem. 275:2000;12789-12798
-
(2000)
J. Biol. Chem.
, vol.275
, pp. 12789-12798
-
-
Kulish, D.1
Lee, J.2
Lomakin, I.3
Nowicka, B.4
Das, A.5
Darst, S.6
Normet, K.7
Borukhov, S.8
-
22
-
-
0346243938
-
Transcript cleavage factors GreA and GreB act as transient catalytic components of RNA polymerase
-
Laptenko O., Lee J., Lomakin I., Borukhov S. Transcript cleavage factors GreA and GreB act as transient catalytic components of RNA polymerase. EMBO J. 22:2003;6322-6334
-
(2003)
EMBO J.
, vol.22
, pp. 6322-6334
-
-
Laptenko, O.1
Lee, J.2
Lomakin, I.3
Borukhov, S.4
-
23
-
-
0030004228
-
Prediction and analysis of coiled-coil structures
-
Lupas A. Prediction and analysis of coiled-coil structures. Methods Enzymol. 266:1996;513-525
-
(1996)
Methods Enzymol.
, vol.266
, pp. 513-525
-
-
Lupas, A.1
-
24
-
-
0034507953
-
Function of transcription cleavage factors GreA and GreB at a regulatory pause site
-
Marr M.T., Roberts J.W. Function of transcription cleavage factors GreA and GreB at a regulatory pause site. Mol. Cell. 6:2000;1275-1285
-
(2000)
Mol. Cell
, vol.6
, pp. 1275-1285
-
-
Marr, M.T.1
Roberts, J.W.2
-
25
-
-
0014432781
-
Solvent content of protein crystals
-
Matthews B.W. Solvent content of protein crystals. J. Mol. Biol. 33:1968;491-497
-
(1968)
J. Mol. Biol.
, vol.33
, pp. 491-497
-
-
Matthews, B.W.1
-
26
-
-
0034868191
-
DksA is required for intercellular spread of Shigella flexneri via an RpoS-independent mechanism
-
Mogull S.A., Runyen-Janecky L.J., Hong M., Payne S.M. dksA is required for intercellular spread of Shigella flexneri via an RpoS-independent mechanism. Infect. Immun. 69:2001;5742-5751
-
(2001)
Infect. Immun.
, vol.69
, pp. 5742-5751
-
-
Mogull, S.A.1
Runyen-Janecky, L.J.2
Hong, M.3
Payne, S.M.4
-
27
-
-
2942696237
-
Antibacterial peptide microcin J25 (MccJ25) inhibits transcription by binding within, and obstructing, the RNA polymerase secondary channel
-
Mukhopadhyay J., Sineva E., Knight J., Levy R., Ebright R. Antibacterial peptide microcin J25 (MccJ25) inhibits transcription by binding within, and obstructing, the RNA polymerase secondary channel. Mol. Cell. 14:2004;739-751
-
(2004)
Mol. Cell
, vol.14
, pp. 739-751
-
-
Mukhopadhyay, J.1
Sineva, E.2
Knight, J.3
Levy, R.4
Ebright, R.5
-
28
-
-
0347536251
-
Isolation of RNA polymerase suppressors of a (p)ppGpp deficiency
-
Murphy H., Cashel M. Isolation of RNA polymerase suppressors of a (p)ppGpp deficiency. Methods Enzymol. 371:2003;596-601
-
(2003)
Methods Enzymol.
, vol.371
, pp. 596-601
-
-
Murphy, H.1
Cashel, M.2
-
29
-
-
0030985687
-
A suppressor of mutations in the region adjacent to iterons of pSC101 ori
-
Ohkubo S., Yamaguchi K. A suppressor of mutations in the region adjacent to iterons of pSC101 ori. J. Bacteriol. 179:1997;2089-2091
-
(1997)
J. Bacteriol.
, vol.179
, pp. 2089-2091
-
-
Ohkubo, S.1
Yamaguchi, K.2
-
30
-
-
0043244877
-
Structure and function of the transcription elongation factor GreB bound to bacterial RNA polymerase
-
Opalka N., Chlenov M., Chacon P., Rice W.J., Wriggers W., Darst S.A. Structure and function of the transcription elongation factor GreB bound to bacterial RNA polymerase. Cell. 114:2003;335-345
-
(2003)
Cell
, vol.114
, pp. 335-345
-
-
Opalka, N.1
Chlenov, M.2
Chacon, P.3
Rice, W.J.4
Wriggers, W.5
Darst, S.A.6
-
31
-
-
0029015817
-
Intrinsic transcript cleavage activity of RNA polymerase
-
Orlova M., Newlands J., Das A., Goldfarb A., Borukhov S. Intrinsic transcript cleavage activity of RNA polymerase. Proc. Natl. Acad. Sci. USA. 92:1995;4596-4600
-
(1995)
Proc. Natl. Acad. Sci. USA
, vol.92
, pp. 4596-4600
-
-
Orlova, M.1
Newlands, J.2
Das, A.3
Goldfarb, A.4
Borukhov, S.5
-
32
-
-
0031059866
-
Processing X-ray diffraction data collected in oscillation mode
-
Otwinowski Z., Minor W. Processing X-ray diffraction data collected in oscillation mode. Methods Enzymol. 276:1997;307-326
-
(1997)
Methods Enzymol.
, vol.276
, pp. 307-326
-
-
Otwinowski, Z.1
Minor, W.2
-
33
-
-
4043069926
-
DksA: A critical component of the transcription initiation machinery that potentiates the regulation of rRNA promoters by ppGpp and the initiating NTP
-
, this issue
-
Paul B.J., Barker M.M., Ross W., Schneider D.A., Webb C., Foster J.W., Gourse R.L. DksA. a critical component of the transcription initiation machinery that potentiates the regulation of rRNA promoters by ppGpp and the initiating NTP Cell. 118:2004;311-322., this issue
-
(2004)
Cell
, vol.118
, pp. 311-322
-
-
Paul, B.J.1
Barker, M.M.2
Ross, W.3
Schneider, D.A.4
Webb, C.5
Foster, J.W.6
Gourse, R.L.7
-
34
-
-
0037543997
-
Unified two-metal mechanism of RNA synthesis and degradation by RNA polymerase
-
Sosunov V., Sosunova E., Mustaev A., Bass I., Nikiforov V., Goldfarb A. Unified two-metal mechanism of RNA synthesis and degradation by RNA polymerase. EMBO J. 22:2003;2234-2244
-
(2003)
EMBO J.
, vol.22
, pp. 2234-2244
-
-
Sosunov, V.1
Sosunova, E.2
Mustaev, A.3
Bass, I.4
Nikiforov, V.5
Goldfarb, A.6
-
35
-
-
0347994909
-
Donation of catalytic residues to RNA polymerase active center by transcription factor Gre
-
Sosunova E., Sosunov V., Kozlov M., Nikiforov V., Goldfarb A., Mustaev A. Donation of catalytic residues to RNA polymerase active center by transcription factor Gre. Proc. Natl. Acad. Sci. USA. 100:2003;15469-15474
-
(2003)
Proc. Natl. Acad. Sci. USA
, vol.100
, pp. 15469-15474
-
-
Sosunova, E.1
Sosunov, V.2
Kozlov, M.3
Nikiforov, V.4
Goldfarb, A.5
Mustaev, A.6
-
36
-
-
0028840106
-
Crystal structure of the GreA transcript cleavage factor from Escherichia coli
-
Stebbins C.E., Borukhov S., Orlova M., Polyakov A., Goldfarb A., Darst S.A. Crystal structure of the GreA transcript cleavage factor from Escherichia coli. Nature. 373:1995;636-640
-
(1995)
Nature
, vol.373
, pp. 636-640
-
-
Stebbins, C.E.1
Borukhov, S.2
Orlova, M.3
Polyakov, A.4
Goldfarb, A.5
Darst, S.A.6
-
37
-
-
0016825910
-
Guanosine 5′-diphosphate 3′-diphosphate (ppGpp) positive effector for histidine operon transcription and general signal for amino-acid deficiency
-
Stephens J.C., Artz S.W., Ames B.N. Guanosine 5′-diphosphate 3′-diphosphate (ppGpp). positive effector for histidine operon transcription and general signal for amino-acid deficiency Proc. Natl. Acad. Sci. USA. 72:1975;4389-4393
-
(1975)
Proc. Natl. Acad. Sci. USA
, vol.72
, pp. 4389-4393
-
-
Stephens, J.C.1
Artz, S.W.2
Ames, B.N.3
-
38
-
-
1642528990
-
Identification of the bacterial alarmone guanosine 5′-diphosphate 3′-diphosphate (ppGpp) in plants
-
Takahashi K., Kasai K., Ochi K. Identification of the bacterial alarmone guanosine 5′-diphosphate 3′-diphosphate (ppGpp) in plants. Proc. Natl. Acad. Sci. USA. 101:2004;4320-4324
-
(2004)
Proc. Natl. Acad. Sci. USA
, vol.101
, pp. 4320-4324
-
-
Takahashi, K.1
Kasai, K.2
Ochi, K.3
-
39
-
-
0037071844
-
Crystal structure of a bacterial RNA polymerase holoenzyme at 2.6 Å resolution
-
Vassylyev D.G., Sekine S., Laptenko O., Lee J., Vassylyeva M.N., Borukhov S., Yokoyama S. Crystal structure of a bacterial RNA polymerase holoenzyme at 2.6 Å resolution. Nature. 417:2002;712-719
-
(2002)
Nature
, vol.417
, pp. 712-719
-
-
Vassylyev, D.G.1
Sekine, S.2
Laptenko, O.3
Lee, J.4
Vassylyeva, M.N.5
Borukhov, S.6
Yokoyama, S.7
-
40
-
-
4043175811
-
Cloning, expression, purification, crystallization and initial crystallographic analysis of transcription factor DksA from Escherichia coli
-
in press.
-
Vassylyeva, M.N., Perederina, A., Svetlov, V., Yokoyama, S., Artsimovitch, I., and Vassylyev, D.G. (2004). Cloning, expression, purification, crystallization and initial crystallographic analysis of transcription factor DksA from Escherichia coli. Acta Crystallogr. D, in press.
-
(2004)
Acta Crystallogr. D
-
-
Vassylyeva, M.N.1
Perederina, A.2
Svetlov, V.3
Yokoyama, S.4
Artsimovitch, I.5
Vassylyev, D.G.6
-
41
-
-
0032870794
-
Effects of DksA and ClpP protease on sigma S production and virulence in Salmonella typhimurium
-
Webb C., Moreno M., Wilmes-Riesenberg M., Curtiss R. 3rd, Foster J.W. Effects of DksA and ClpP protease on sigma S production and virulence in Salmonella typhimurium. Mol. Microbiol. 34:1999;112-123
-
(1999)
Mol. Microbiol.
, vol.34
, pp. 112-123
-
-
Webb, C.1
Moreno, M.2
Wilmes-Riesenberg, M.3
Curtiss III, R.4
Foster, J.W.5
-
42
-
-
19944409045
-
The design and implementation of SnB version 2.0
-
Weeks C.M., Miller R. The design and implementation of SnB version 2.0. J. Appl. Crystallogr. 32:1999;120-124
-
(1999)
J. Appl. Crystallogr.
, vol.32
, pp. 120-124
-
-
Weeks, C.M.1
Miller, R.2
-
43
-
-
0031059039
-
Detecting and overcoming crystal twinning
-
Yeates T.D. Detecting and overcoming crystal twinning. Methods Enzymol. 276:1997;344-358
-
(1997)
Methods Enzymol.
, vol.276
, pp. 344-358
-
-
Yeates, T.D.1
|