The oligomerization of OxyR in Escherichia coli

doi:10.1002/pro.5

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The oligomerization of OxyR in Escherichia coli

Gwendowlyn S. Knapp^1,†,
Jerry W. Tsai^1,2,‡,
James C. Hu^1,2,*

Article first published online: 2 DEC 2008

DOI: 10.1002/pro.5

Issue

Protein Science

Volume 18, Issue 1, pages 101–107, January 2009

Additional Information

How to Cite

Knapp, G. S., Tsai, J. W. and Hu, J. C. (2009), The oligomerization of OxyR in Escherichia coli. Protein Science, 18: 101–107. doi: 10.1002/pro.5

Author Information

¹
Department of Biochemistry and Biophysics, Texas A&M University, 2128 TAMU, College Station, Texas 77843-2128
²
Texas AgriLife Research, Texas A&M University, 2128 TAMU, College Station, Texas 77843-2128

^†
Wadsworth Center, 120 New Scotland Avenue, PO Box 22002, Albany, New York 12201-2002
^‡
Department of Chemistry, University of the Pacific, 3601 Pacific Avenue, Stockton, California

Email: James C. Hu (jimhu@tamu.edu)

^*Department of Biochemistry and Biophysics, Texas A&M University, 2128 TAMU, College Station, Texas 77843-2128

Publication History

Issue published online: 16 DEC 2008
Article first published online: 2 DEC 2008
Accepted manuscript online: 2 DEC 2008 12:00AM EST
Manuscript Accepted: 26 SEP 2008
Manuscript Revised: 25 SEP 2008
Manuscript Received: 21 JUL 2008

Funded by

NIGMS (by Public Health Service). Grant Number: R01GM63652-01

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References

1
Tatusov RL,Galperin MY,Natale DA,Koonin EV (2000) The COG database: a tool for genome-scale analysis of protein functions and evolution. Nucleic Acids Res 28: 33–36.
2
Christman MF,Storz G,Ames BN (1989) OxyR, a positive regulator of hydrogen peroxide-inducible genes in Escherichia coli and Salmonella typhimurium, is homologous to a family of bacterial regulatory proteins. Proc Natl Acad Sci USA 86: 3484–3488.
3
Kullik I,Stevens J,Toledano MB,Storz G (1995) Mutational analysis of the redox-sensitive transcriptional regulator OxyR: regions important for DNA binding and multimerization. J Bacteriol 177: 1285–1291.
4
Zheng M,Aslund F,Storz G (1998) Activation of the OxyR transcription factor by reversible disulfide bond formation. Science 279: 1718–1721.
5
Choi H,Kim S,Mukhopadhyay P,Cho S,Woo J,Storz G,Ryu S (2001) Structural basis of the redox switch in the OxyR transcription factor. Cell 105: 103–113.
6
Clackson T,Wells JA (1995) A hot spot of binding energy in a hormone-receptor interface. Science 267: 383–386.
7
Fischer TB,Holmes JB,Miller IR,Parsons JR,Tung L,Hu JC,Tsai J (2006) Assessing methods for identifying pair-wise atomic contacts across binding interfaces. J Struct Biol 153: 103–112.
8
Hu JC,O'Shea EK,Kim PS,Sauer RT (1990) Sequence requirements for coiled-coils: analysis with lambda repressor-GCN4 leucine zipper fusions. Science 250: 1400–1403.
9
Muraoka S,Okumura R,Ogawa N,Nonaka T,Miyashita K,Senda T (2003) Crystal structure of a full-length LysR-type transcriptional regulator, CbnR: unusual combination of two subunit forms and molecular bases for causing and changing DNA bend. J Mol Biol 328: 555–566.
10
Smirnova IA,Dian C,Leonard GA,McSweeney S,Birse D,Brzezinski P (2004) Development of a bacterial biosensor for nitrotoluenes: the crystal structure of the transcriptional regulator DntR. J Mol Biol 340: 405–418.
11
Tsai CJ,Lin SL,Wolfson HJ,Nussinov R (1996) A dataset of protein-protein interfaces generated with a sequence-order-independent comparison technique. J Mol Biol 260: 604–620.
12
Bogan AA,Thorn KS (1998) Anatomy of hot spots in protein interfaces. J Mol Biol 280: 1–9.
13
Hu Z,Ma B,Wolfson H,Nussinov R (2000) Conservation of polar residues as hot spots at protein interfaces. Proteins 39: 331–342.
Direct Link:
14
Keskin O,Ma B,Nussinov R (2005) Hot regions in protein–protein interactions: the organization and contribution of structurally conserved hot spot residues. J Mol Biol 345: 1281–1294.
15
Guharoy M,Chakrabarti P (2005) Conservation and relative importance of residues across protein-protein interfaces. Proc Natl Acad Sci USA 102: 15447–15452.
16
Henrick K,Thornton JM (1998) PQS: a protein quaternary structure file server. Trends Biochem Sci 23: 358–361.
17
Walhout AJ,Temple GF,Brasch MA,Hartley JL,Lorson MA,van den Heuvel S,Vidal M (2000) GATEWAY recombinational cloning: application to the cloning of large numbers of open reading frames or ORFeomes. Methods Enzymol 328: 575–592.
18
Mariño-Ramírez L,Minor JL,Reading N,Hu JC (2004) Identification and mapping of self-assembling protein domains encoded by the Escherichia coli K-12 genome by use of lambda repressor fusions. J Bacteriol 186: 1311–1319.
19
Mariño-Ramírez L,Hu JC (2002) Isolation and mapping of self-assembling protein domains encoded by the Saccharomyces cerevisiae genome using lambda repressor fusions. Yeast 19: 641–650.
Direct Link:
20
Hu JC,Newell NE,Tidor B,Sauer RT (1993) Probing the roles of residues at the e and g positions of the GCN4 leucine zipper by combinatorial mutagenesis. Protein Sci 2: 1072–1084.
Direct Link:

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