-
1
-
-
14244272868
-
PHENIX: Building new software for automated crystallographic structure determination
-
DOI 10.1107/S0907444902016657
-
P.D. Adams, R.W. Grosse-Kunstleve, L.W. Hung, T.R. Ioerger, A.J. McCoy, N.W. Moriarty, R.J. Read, J.C. Sacchettini, N.K. Sauter, and T.C. Terwilliger PHENIX: building new software for automated crystallographic structure determination Acta Crystallogr. D Biol. Crystallogr. 58 2002 1948 1954 (Pubitemid 35337293)
-
(2002)
Acta Crystallographica Section D: Biological Crystallography
, vol.58
, Issue.11
, pp. 1948-1954
-
-
Adams, P.D.1
Grosse-Kunstleve, R.W.2
Hung, L.-W.3
Ioerger, T.R.4
McCoy, A.J.5
Moriarty, N.W.6
Read, R.J.7
Sacchettini, J.C.8
Sauter, N.K.9
Terwilliger, T.C.10
-
2
-
-
33751228400
-
ATP-dependent proteases of bacteria: recognition logic and operating principles
-
DOI 10.1016/j.tibs.2006.10.006, PII S0968000406002969
-
T.A. Baker, and R.T. Sauer ATP-dependent proteases of bacteria: recognition logic and operating principles Trends Biochem. Sci. 31 2006 647 653 (Pubitemid 44791948)
-
(2006)
Trends in Biochemical Sciences
, vol.31
, Issue.12
, pp. 647-653
-
-
Baker, T.A.1
Sauer, R.T.2
-
4
-
-
0028951033
-
The Cpx two-component signal transduction pathway of Escherichia coli regulates transcription of the gene specifying the stress-inducible periplasmic protease. DegP
-
P.N. Danese, W.B. Snyder, C.L. Cosma, L.J. Davis, and T.J. Silhavy The Cpx two-component signal transduction pathway of Escherichia coli regulates transcription of the gene specifying the stress-inducible periplasmic protease. DegP Genes Dev. 9 1995 387 398
-
(1995)
Genes Dev.
, vol.9
, pp. 387-398
-
-
Danese, P.N.1
Snyder, W.B.2
Cosma, C.L.3
Davis, L.J.4
Silhavy, T.J.5
-
5
-
-
34547592557
-
MolProbity: All-atom contacts and structure validation for proteins and nucleic acids
-
I.W. Davis, A. Leaver-Fay, V.B. Chen, J.N. Block, G.J. Kapral, X. Wang, L.W. Murray, W.B. Arendall III, J. Snoeyink, J.S. Richardson, and D.C. Richardson MolProbity: all-atom contacts and structure validation for proteins and nucleic acids Nucleic Acids Res. 35 2007 W375 W383
-
(2007)
Nucleic Acids Res.
, vol.35
-
-
Davis, I.W.1
Leaver-Fay, A.2
Chen, V.B.3
Block, J.N.4
Kapral, G.J.5
Wang, X.6
Murray, L.W.7
Iii, B.A.W.8
Snoeyink, J.9
Richardson, J.S.10
Richardson, D.C.11
-
8
-
-
34247854965
-
Role of the PDZ domains in Escherichia coli DegP protein
-
DOI 10.1128/JB.01788-06
-
J. Iwanczyk, D. Damjanovic, J. Kooistra, V. Leong, A. Jomaa, R. Ghirlando, and J. Ortega Role of the PDZ domains in Escherichia coli DegP protein J. Bacteriol. 189 2007 3176 3186 (Pubitemid 46697408)
-
(2007)
Journal of Bacteriology
, vol.189
, Issue.8
, pp. 3176-3186
-
-
Iwanczyk, J.1
Damjanovic, D.2
Kooistra, J.3
Leong, V.4
Jomaa, A.5
Ghirlando, R.6
Ortega, J.7
-
9
-
-
50149107174
-
Activation of DegP chaperone-protease via formation of large cage-like oligomers upon binding to substrate proteins
-
J. Jiang, X. Zhang, Y. Chen, Y. Wu, Z.H. Zhou, Z. Chang, and S.F. Sui Activation of DegP chaperone-protease via formation of large cage-like oligomers upon binding to substrate proteins Proc. Natl. Acad. Sci. USA 105 2008 11939 11944
-
(2008)
Proc. Natl. Acad. Sci. USA
, vol.105
, pp. 11939-11944
-
-
Jiang, J.1
Zhang, X.2
Chen, Y.3
Wu, Y.4
Zhou, Z.H.5
Chang, Z.6
Sui, S.F.7
-
10
-
-
33846588852
-
The inner cavity of Escherichia coli DegP protein is not essential for molecular chaperone and proteolytic activity
-
DOI 10.1128/JB.01334-06
-
A. Jomaa, D. Damjanovic, V. Leong, R. Ghirlando, J. Iwanczyk, and J. Ortega The inner cavity of Escherichia coli DegP protein is not essential for molecular chaperone and proteolytic activity J. Bacteriol. 189 2007 706 716 (Pubitemid 46183845)
-
(2007)
Journal of Bacteriology
, vol.189
, Issue.3
, pp. 706-716
-
-
Jomaa, A.1
Damjanovic, D.2
Leong, V.3
Ghirlando, R.4
Iwanczyk, J.5
Ortega, J.6
-
11
-
-
0029843213
-
The DegP and DegQ periplasmic endoproteases of Escherichia coli: Specificity for cleavage sites and substrate conformation
-
H. Kolmar, P.R. Waller, and R.T. Sauer The DegP and DegQ periplasmic endoproteases of Escherichia coli: specificity for cleavage sites and substrate conformation J. Bacteriol. 178 1996 5925 5929 (Pubitemid 26337776)
-
(1996)
Journal of Bacteriology
, vol.178
, Issue.20
, pp. 5925-5929
-
-
Kolmar, H.1
Waller, P.R.H.2
Sauer, R.T.3
-
12
-
-
0037187588
-
Crystal structure of DegP (HtrA) reveals a new protease-chaperone machine
-
DOI 10.1038/416455a
-
T. Krojer, M. Garrido-Franco, R. Huber, M. Ehrmann, and T. Clausen Crystal structure of DegP (HtrA) reveals a new protease-chaperone machine Nature 416 2002 455 459 (Pubitemid 34272883)
-
(2002)
Nature
, vol.416
, Issue.6879
, pp. 455-459
-
-
Krojer, T.1
Garrido-Franco, M.2
Huber, R.3
Ehrmann, M.4
Clausen, T.5
-
13
-
-
45549098563
-
Interplay of PDZ and protease domain of DegP ensures efficient elimination of misfolded proteins
-
DOI 10.1073/pnas.0803392105
-
T. Krojer, K. Pangerl, J. Kurt, J. Sawa, C. Stingl, K. Mechtler, R. Huber, M. Ehrmann, and T. Clausen Interplay of PDZ and protease domain of DegP ensures efficient elimination of misfolded proteins Proc. Natl. Acad. Sci. USA 105 2008 7702 7707 (Pubitemid 351872702)
-
(2008)
Proceedings of the National Academy of Sciences of the United States of America
, vol.105
, Issue.22
, pp. 7702-7707
-
-
Krojer, T.1
Pangerl, K.2
Kurt, J.3
Sawa, J.4
Stingl, C.5
Mechtler, K.6
Huber, R.7
Ehrmann, M.8
Clausen, T.9
-
14
-
-
45149106311
-
Structural basis for the regulated protease and chaperone function of DegP
-
DOI 10.1038/nature07004, PII NATURE07004
-
T. Krojer, J. Sawa, E. Schafer, H.R. Saibil, M. Ehrmann, and T. Clausen Structural basis for the regulated protease and chaperone function of DegP Nature 453 2008 885 890 (Pubitemid 351832567)
-
(2008)
Nature
, vol.453
, Issue.7197
, pp. 885-890
-
-
Krojer, T.1
Sawa, J.2
Schafer, E.3
Saibil, H.R.4
Ehrmann, M.5
Clausen, T.6
-
15
-
-
77954384306
-
HtrA proteases have a conserved activation mechanism that can be triggered by distinct molecular cues
-
T. Krojer, J. Sawa, R. Huber, and T. Clausen HtrA proteases have a conserved activation mechanism that can be triggered by distinct molecular cues Nat. Struct. Mol. Biol. 17 2010 844 852
-
(2010)
Nat. Struct. Mol. Biol.
, vol.17
, pp. 844-852
-
-
Krojer, T.1
Sawa, J.2
Huber, R.3
Clausen, T.4
-
16
-
-
37249067732
-
The origin of protein interactions and allostery in colocalization
-
DOI 10.1038/nature06524, PII NATURE06524
-
J. Kuriyan, and D. Eisenberg The origin of protein interactions and allostery in colocalization Nature 450 2007 983 990 (Pubitemid 350273628)
-
(2007)
Nature
, vol.450
, Issue.7172
, pp. 983-990
-
-
Kuriyan, J.1
Eisenberg, D.2
-
17
-
-
77953694169
-
Control of substrate gating and translocation into ClpP by channel residues and ClpX binding
-
M.E. Lee, T.A. Baker, and R.T. Sauer Control of substrate gating and translocation into ClpP by channel residues and ClpX binding J. Mol. Biol. 399 2010 707 718
-
(2010)
J. Mol. Biol.
, vol.399
, pp. 707-718
-
-
Lee, M.E.1
Baker, T.A.2
Sauer, R.T.3
-
18
-
-
0023808092
-
32-independent mechanism of heat-inducible transcription
-
B. Lipinska, S. Sharma, and C. Georgopoulos Sequence analysis and regulation of the htrA gene of Escherichia coli: a sigma 32-independent mechanism of heat-inducible transcription Nucleic Acids Res. 16 1988 10053 10067 (Pubitemid 18264971)
-
(1988)
Nucleic Acids Research
, vol.16
, Issue.21
, pp. 10053-10067
-
-
Lipinska, B.1
Sharma, S.2
Georgopoulos, C.3
-
19
-
-
0024519269
-
Identification, characterization, and mapping of the Escherichia coli htrA gene, whose product is essential for bacterial growth only at elevated temperatures
-
B. Lipinska, O. Fayet, L. Baird, and C. Georgopoulos Identification, characterization, and mapping of the Escherichia coli htrA gene, whose product is essential for bacterial growth only at elevated temperatures J. Bacteriol. 171 1989 1574 1584 (Pubitemid 19080799)
-
(1989)
Journal of Bacteriology
, vol.171
, Issue.3
, pp. 1574-1584
-
-
Lipinska, B.1
Fayet, O.2
Baird, L.3
Georgopoulos, C.4
-
20
-
-
0025317783
-
The HtrA (DegP) protein, essential for Escherichia coli survival at high temperatures, is an endopeptidase
-
B. Lipinska, M. Zylicz, and C. Georgopoulos The HtrA (DegP) protein, essential for Escherichia coli survival at high temperatures, is an endopeptidase J. Bacteriol. 172 1990 1791 1797 (Pubitemid 20111996)
-
(1990)
Journal of Bacteriology
, vol.172
, Issue.4
, pp. 1791-1797
-
-
Lipinska, B.1
Zylicz, M.2
Georgopoulos, C.3
-
21
-
-
77954384789
-
Determinants of structural and functional plasticity of a widely conserved protease chaperone complex
-
M. Merdanovic, N. Mamant, M. Meltzer, S. Poepsel, A. Auckenthaler, R. Melgaard, P. Hauske, L. Nagel-Steger, A.R. Clarke, and M. Kaiser Determinants of structural and functional plasticity of a widely conserved protease chaperone complex Nat. Struct. Mol. Biol. 17 2010 837 843
-
(2010)
Nat. Struct. Mol. Biol.
, vol.17
, pp. 837-843
-
-
Merdanovic, M.1
Mamant, N.2
Meltzer, M.3
Poepsel, S.4
Auckenthaler, A.5
Melgaard, R.6
Hauske, P.7
Nagel-Steger, L.8
Clarke, A.R.9
Kaiser, M.10
-
22
-
-
78651189765
-
On the nature of allosteric transitions: A plausible model
-
J. Monod, J. Wyman, and J.P. Changeux On the nature of allosteric transitions: a plausible model J. Mol. Biol. 12 1965 88 118
-
(1965)
J. Mol. Biol.
, vol.12
, pp. 88-118
-
-
Monod, J.1
Wyman, J.2
Changeux, J.P.3
-
23
-
-
0031059866
-
Processing of X-ray diffraction data collected in oscillation mode
-
DOI 10.1016/S0076-6879(97)76066-X
-
Z. Otwinowski, and W. Minor Processing of X-ray diffraction data collected in oscillation mode Methods Enzymol. 276 1997 307 326 (Pubitemid 27085611)
-
(1997)
Methods in Enzymology
, vol.276
, pp. 307-326
-
-
Otwinowski, Z.1
Minor, W.2
-
24
-
-
0026682657
-
Transcription factors: Structural families and principles of DNA recognition
-
C.O. Pabo, and R.T. Sauer Transcription factors: structural families and principles of DNA recognition Annu. Rev. Biochem. 61 1992 1053 1095
-
(1992)
Annu. Rev. Biochem.
, vol.61
, pp. 1053-1095
-
-
Pabo, C.O.1
Sauer, R.T.2
-
25
-
-
19944402536
-
Envelope stress responses and Gram-negative bacterial pathogenesis
-
DOI 10.1111/j.1365-2958.2005.04625.x
-
T.L. Raivio Envelope stress responses and Gram-negative bacterial pathogenesis Mol. Microbiol. 56 2005 1119 1128 (Pubitemid 40755997)
-
(2005)
Molecular Microbiology
, vol.56
, Issue.5
, pp. 1119-1128
-
-
Raivio, T.L.1
-
26
-
-
0035161025
-
Genetic evidence for parallel pathways of chaperone activity in the periplasm of Escherichia coli
-
DOI 10.1128/JB.183.23.6794-6800.2001
-
A.E. Rizzitello, J.R. Harper, and T.J. Silhavy Genetic evidence for parallel pathways of chaperone activity in the periplasm of Escherichia coli J. Bacteriol. 183 2001 6794 6800 (Pubitemid 33064192)
-
(2001)
Journal of Bacteriology
, vol.183
, Issue.23
, pp. 6794-6800
-
-
Rizzitello, A.E.1
Harper, J.R.2
Silhavy, T.J.3
-
27
-
-
0034009520
-
Size-distribution analysis of macromolecules by sedimentation velocity ultracentrifugation and Lamm equation modeling
-
P. Schuck Size distribution analysis of macromolecules by sedimentation velocity ultracentrifugation and Lamm equation modeling Biophys. J. 78 2000 1606 1619 (Pubitemid 30141584)
-
(2000)
Biophysical Journal
, vol.78
, Issue.3
, pp. 1606-1619
-
-
Schuck, P.1
-
28
-
-
34948827356
-
Defining the roles of the periplasmic chaperones SurA, Skp, and DegP in Escherichia coli
-
DOI 10.1101/gad.1581007
-
J.G. Sklar, T. Wu, D. Kahne, and T.J. Silhavy Defining the roles of the periplasmic chaperones SurA, Skp, and DegP in Escherichia coli Genes Dev. 21 2007 2473 2484 (Pubitemid 47529375)
-
(2007)
Genes and Development
, vol.21
, Issue.19
, pp. 2473-2484
-
-
Sklar, J.G.1
Wu, T.2
Kahne, D.3
Silhavy, T.J.4
-
29
-
-
35548973933
-
Allosteric Activation of DegS, a Stress Sensor PDZ Protease
-
DOI 10.1016/j.cell.2007.08.044, PII S0092867407011427
-
J. Sohn, R.A. Grant, and R.T. Sauer Allosteric activation of DegS, a stress sensor PDZ protease Cell 131 2007 572 583 (Pubitemid 350007693)
-
(2007)
Cell
, vol.131
, Issue.3
, pp. 572-583
-
-
Sohn, J.1
Grant, R.A.2
Sauer, R.T.3
-
30
-
-
58149287846
-
OMP peptides modulate the activity of DegS protease by differential binding to active and inactive conformations
-
J. Sohn, and R.T. Sauer OMP peptides modulate the activity of DegS protease by differential binding to active and inactive conformations Mol. Cell 33 2009 64 74
-
(2009)
Mol. Cell
, vol.33
, pp. 64-74
-
-
Sohn, J.1
Sauer, R.T.2
-
31
-
-
0033617146
-
A temperature-dependent switch from chaperone to protease in a widely conserved heat shock protein
-
DOI 10.1016/S0092-8674(00)80743-6
-
C. Spiess, A. Beil, and M. Ehrmann A temperature-dependent switch from chaperone to protease in a widely conserved heat shock protein Cell 97 1999 339 347 (Pubitemid 29214590)
-
(1999)
Cell
, vol.97
, Issue.3
, pp. 339-347
-
-
Spiess, C.1
Beil, A.2
Ehrmann, M.3
-
33
-
-
0024673026
-
Characterization of degP, a gene required for proteolysis in the cell envelope and essential for growth of Escherichia coli at high temperature
-
K.L. Strauch, K. Johnson, and J. Beckwith Characterization of degP, a gene required for proteolysis in the cell envelope and essential for growth of Escherichia coli at high temperature J. Bacteriol. 171 1989 2689 2696
-
(1989)
J. Bacteriol.
, vol.171
, pp. 2689-2696
-
-
Strauch, K.L.1
Johnson, K.2
Beckwith, J.3
-
34
-
-
0021104535
-
Isolation and characterization of protease do from Escherichia coli, a large serine protease containing multiple subunits
-
K.H. Swamy, C.H. Chung, and A.L. Goldberg Isolation and characterization of protease do from Escherichia coli, a large serine protease containing multiple subunits Arch. Biochem. Biophys. 224 1983 543 554
-
(1983)
Arch. Biochem. Biophys.
, vol.224
, pp. 543-554
-
-
Swamy, K.H.1
Chung, C.H.2
Goldberg, A.L.3
-
35
-
-
39449115415
-
The mitochondrial serine protease HtrA2/Omi: An overview
-
DOI 10.1038/sj.cdd.4402291, PII 4402291
-
L. Vande Walle, M. Lamkanfi, and P. Vandenabeele The mitochondrial serine protease HtrA2/Omi: an overview Cell Death Differ. 15 2008 453 460 (Pubitemid 351267296)
-
(2008)
Cell Death and Differentiation
, vol.15
, Issue.3
, pp. 453-460
-
-
Vande Walle, L.1
Lamkanfi, M.2
Vandenabeele, P.3
-
36
-
-
0344953579
-
OMP peptide signals initiate the envelope-stress response by activating DegS protease via relief of inhibition mediated by its PDZ domain
-
DOI 10.1016/S0092-8674(03)00203-4
-
N.P. Walsh, B.M. Alba, B. Bose, C.A. Gross, and R.T. Sauer OMP peptide signals initiate the envelope-stress response by activating DegS protease via relief of inhibition mediated by its PDZ domain Cell 113 2003 61 71 (Pubitemid 36411960)
-
(2003)
Cell
, vol.113
, Issue.1
, pp. 61-71
-
-
Walsh, N.P.1
Alba, B.M.2
Bose, B.3
Gross, C.A.4
Sauer, R.T.5
-
37
-
-
0028180877
-
PKSS-a second-generation general purpose cloning vector for efficient positive selection of recombinant clones
-
Kast, P. (1996) pKSS-a second-generation general purpose cloning vector for efficient positive selection of recombinant clones. Gene 138, 109-114.
-
(1996)
Gene
, vol.138
, pp. 109-114
-
-
Kast, P.1
-
38
-
-
0033620647
-
The unstable F-box protein p58-Ctf13 forms the structural core of the CBF3 kinetochore complex
-
DOI 10.1083/jcb.145.5.933
-
Russell, I.D.; Grancell, A.S.; and Sorger, P.K. (1999). The unstable F-box protein p58-Ctf13 forms the structural core of the CBF3 kinetochore complex. J. Cell Biol. 145, 933-950. (Pubitemid 29270053)
-
(1999)
Journal of Cell Biology
, vol.145
, Issue.5
, pp. 933-950
-
-
Russell, I.D.1
Grancell, A.S.2
Sorger, P.K.3
-
39
-
-
39849093502
-
Recombineering: Genetic engineering in bacteria using homologous recombination
-
Thomason, L.; Court, D.L.; Bubunenko, M.; Costantino, N.; Wilson, H.; Datta, S.; and Oppenheim, A. (2007). Recombineering: genetic engineering in bacteria using homologous recombination. Curr. Protoc. Mol. Biol. 78, 1.16.1-1.16.24.
-
(2007)
Curr. Protoc. Mol. Biol.
, vol.78
, pp. 1161-11624
-
-
Thomason, L.1
Court ., D.L.2
Bubunenko, M.3
Costantino, N.4
Wilson, H.5
Datta, S.6
Oppenheim, A.7
|