Mechanism of regulation of receptor histidine kinases

Structure

Volumn 20, Issue 1, 2012, Pages 56-66

  Ferris, Hedda U ^a   Dunin Horkawicz, Stanislaw ^a   Hornig, Nora ^a   Hulko, Michael ^a   Martin, Jörg ^a   Schultz, Joachim E ^b   Zeth, Kornelius ^a   Lupas, Andrei N ^a   Coles, Murray ^a  

^a MAX PLANCK INSTITUTE FOR DEVELOPMENTAL BIOLOGY   (Germany)

^b UNIVERSITY OF TÜBINGEN   (Germany)

Author keywords

[No Author keywords available]

Indexed keywords

ENZYME VARIANT; HISTIDINE; HYBRID PROTEIN; MUTANT PROTEIN; PROTEIN HISTIDINE KINASE; RECEPTOR HISTIDINE KINASE; UNCLASSIFIED DRUG;

AMINO ACID SEQUENCE; AMINO TERMINAL SEQUENCE; ARTICLE; CARBOXY TERMINAL SEQUENCE; CONFORMATIONAL TRANSITION; CONTROLLED STUDY; ENZYME ACTIVE SITE; ENZYME ACTIVITY; ENZYME CONFORMATION; ENZYME MECHANISM; ENZYME STRUCTURE; ESCHERICHIA COLI; MOLECULAR MODEL; MOLECULAR RECOGNITION; PRIORITY JOURNAL; PROTEIN DOMAIN; REGULATORY MECHANISM; WILD TYPE;

AMINO ACID SEQUENCE; BACTERIAL OUTER MEMBRANE PROTEINS; BACTERIAL PROTEINS; CATALYTIC DOMAIN; COMPUTATIONAL BIOLOGY; CRYSTALLOGRAPHY, X-RAY; ESCHERICHIA COLI PROTEINS; MEMBRANE PROTEINS; MODELS, MOLECULAR; MOLECULAR SEQUENCE DATA; MULTIENZYME COMPLEXES; NUCLEAR MAGNETIC RESONANCE, BIOMOLECULAR; PROTEIN KINASES; PROTEIN STRUCTURE, TERTIARY; SIGNAL TRANSDUCTION;

BACTERIA (MICROORGANISMS);

EID: 84862928844     PISSN: 09692126     EISSN: 18784186     Source Type: Journal    
DOI: 10.1016/j.str.2011.11.014     Document Type: Article

References (41)

1. M.V. Airola, K.J. Watts, A.M. Bilwes, and B.R. Crane Structure of concatenated HAMP domains provides a mechanism for signal transduction Structure 18 2010 436 448
2. D. Albanesi, M. Martín, F. Trajtenberg, M.C. Mansilla, A. Haouz, P.M. Alzari, D. de Mendoza, and A. Buschiazzo Structural plasticity and catalysis regulation of a thermosensor histidine kinase Proc. Natl. Acad. Sci. USA 106 2009 16185 16190
3. S.F. Altschul, T.L. Madden, A.A. Schäffer, J. Zhang, Z. Zhang, W. Miller, and D.J. Lipman Gapped BLAST and PSI-BLAST: a new generation of protein database search programs Nucleic Acids Res. 25 1997 3389 3402 (Pubitemid 27359211)
4. V. Anantharaman, S. Balaji, and L. Aravind The signaling helix: a common functional theme in diverse signaling proteins Biol. Direct 1 2006 25
5. M.J. Bick, V. Lamour, K.R. Rajashankar, Y. Gordiyenko, C.V. Robinson, and S.A. Darst How to switch off a histidine kinase: crystal structure of Geobacillus stearothermophilus KinB with the inhibitor Sda J. Mol. Biol. 386 2009 163 177
6. A. Biegert, C. Mayer, M. Remmert, J. Söding, and A.N. Lupas The MPI Bioinformatics Toolkit for protein sequence analysis Nucleic Acids Res. 34 Web Server issue 2006 W335 W339
7. J.H. Brown, C. Cohen, and D.A. Parry Heptad breaks in α-helical coiled coils: stutters and stammers Proteins 26 1996 134 145 (Pubitemid 26365307)
8. P. Casino, V. Rubio, and A. Marina Structural insight into partner specificity and phosphoryl transfer in two-component signal transduction Cell 139 2009 325 336
9. P. Casino, V. Rubio, and A. Marina The mechanism of signal transduction by two-component systems Curr. Opin. Struct. Biol. 20 2010 763 771
10. V.B. Chen, I.W. Davis, and D.C. Richardson KING (Kinemage, Next Generation): a versatile interactive molecular and scientific visualization program Protein Sci. 18 2009 2403 2409
11. V.B. Chen, W.B. Arendall 3rd, J.J. Headd, D.A. Keedy, R.M. Immormino, G.J. Kapral, L.W. Murray, J.S. Richardson, and D.C. Richardson MolProbity: all-atom structure validation for macromolecular crystallography Acta Crystallogr. D Biol. Crystallogr. 66 2010 12 21
12. G. Cornilescu, F. Delaglio, and A. Bax Protein backbone angle restraints from searching a database for chemical shift and sequence homology J. Biomol. NMR 13 1999 289 302 (Pubitemid 29143535)
13. I.W. Davis, A. Leaver-Fay, V.B. Chen, J.N. Block, G.J. Kapral, X. Wang, L.W. Murray, W.B. Arendall 3rd, 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 Web Server issue 2007 W375 W383
14. T. Diercks, M. Coles, and H. Kessler An efficient strategy for assignment of cross-peaks in 3D heteronuclear NOESY experiments J. Biomol. NMR 15 1999 177 180
15. S. Dunin-Horkawicz, and A.N. Lupas Comprehensive analysis of HAMP domains: implications for transmembrane signal transduction J. Mol. Biol. 397 2010 1156 1174
16. S. Dunin-Horkawicz, and A.N. Lupas Measuring the conformational space of square four-helical bundles with the program samCC J. Struct. Biol. 170 2010 226 235
17. P. Emsley, and K. Cowtan Coot: model-building tools for molecular graphics Acta Crystallogr. D Biol. Crystallogr. 60 2004 2126 2132 (Pubitemid 41742764)
18. H.U. Ferris, S. Dunin-Horkawicz, L.G. Mondéjar, M. Hulko, K. Hantke, J. Martin, J.E. Schultz, K. Zeth, A.N. Lupas, and M. Coles The mechanisms of HAMP-mediated signaling in transmembrane receptors Structure 19 2011 378 385
19. R. Gao, and A.M. Stock Biological insights from structures of two-component proteins Annu. Rev. Microbiol. 63 2009 133 154
20. S.W. Ginzinger, and M. Coles SimShiftDB; local conformational restraints derived from chemical shift similarity searches on a large synthetic database J. Biomol. NMR 43 2009 179 185
21. W. Hsing, and T.J. Silhavy Function of conserved histidine-243 in phosphatase activity of EnvZ, the sensor for porin osmoregulation in Escherichia coli J. Bacteriol. 179 1997 3729 3735 (Pubitemid 27233016)
22. M. Hulko, F. Berndt, M. Gruber, J.U. Linder, V. Truffault, A. Schultz, J. Martin, J.E. Schultz, A.N. Lupas, and M. Coles The HAMP domain structure implies helix rotation in transmembrane signaling Cell 126 2006 929 940 (Pubitemid 44310780)
23. T. Jin, and M. Inouye Ligand binding to the receptor domain regulates the ratio of kinase to phosphatase activities of the signaling domain of the hybrid Escherichia coli transmembrane receptor, Taz1 J. Mol. Biol. 232 1993 484 492 (Pubitemid 23251173)
24. A. Kabsch Automatic processing of rotation diffraction data from crystals of initially unknown symmetry and cell constants J. Appl. Cryst. 26 1993 795 800
25. A. Marina, C.D. Waldburger, and W.A. Hendrickson Structure of the entire cytoplasmic portion of a sensor histidine-kinase protein EMBO J. 24 2005 4247 4259 (Pubitemid 41828900)
26. K.M. Michalodimitrakis, V. Sourjik, and L. Serrano Plasticity in amino acid sensing of the chimeric receptor Taz Mol. Microbiol. 58 2005 257 266 (Pubitemid 41415045)
27. E. Potterton, P. Briggs, M. Turkenburg, and E. Dodson A graphical user interface to the CCP4 program suite Acta Crystallogr. D Biol. Crystallogr. 59 2003 1131 1137 (Pubitemid 36872348)
28. F.D. Russo, and T.J. Silhavy The essential tension: opposed reactions in bacterial two-component regulatory systems Trends Microbiol. 1 1993 306 310 (Pubitemid 23334600)
29. A. Sali, and T.L. Blundell Comparative protein modelling by satisfaction of spatial restraints J. Mol. Biol. 234 1993 779 815 (Pubitemid 24007801)
30. J.M. Skerker, B.S. Perchuk, A. Siryaporn, E.A. Lubin, O. Ashenberg, M. Goulian, and M.T. Laub Rewiring the specificity of two-component signal transduction systems Cell 133 2008 1043 1054 (Pubitemid 351787742)
31. J. Söding, A. Biegert, and A.N. Lupas The HHpred interactive server for protein homology detection and structure prediction Nucleic Acids Res. 33 Web Server issue 2005 W244 W248
32. K.E. Swain, and J.J. Falke Structure of the conserved HAMP domain in an intact, membrane-bound chemoreceptor: a disulfide mapping study Biochemistry 46 2007 13684 13695 (Pubitemid 350223896)
33. T.C. Terwilliger Maximum-likelihood density modification Acta Crystallogr. D Biol. Crystallogr. 56 2000 965 972 (Pubitemid 30622779)
34. C. Tomomori, T. Tanaka, R. Dutta, H. Park, S.K. Saha, Y. Zhu, R. Ishima, D. Liu, K.I. Tong, and H. Kurokawa Solution structure of the homodimeric core domain of Escherichia coli histidine kinase EnvZ Nat. Struct. Biol. 6 1999 729 734 (Pubitemid 29360231)
35. R. Utsumi, R.E. Brissette, A. Rampersaud, S.A. Forst, K. Oosawa, and M. Inouye Activation of bacterial porin gene expression by a chimeric signal transducer in response to aspartate Science 245 1989 1246 1249 (Pubitemid 19238750)
36. K.J. Watts, M.S. Johnson, and B.L. Taylor Structure-function relationships in the HAMP and proximal signaling domains of the aerotaxis receptor Aer J. Bacteriol. 190 2008 2118 2127 (Pubitemid 351355335)
37. P.M. Wolanin, and J.B. Stock Transmembrane signaling and the regulation of histidine kinase activity M. Inouye, R. Dutta, Histidine Kinases In Signal Transduction 2003 Academic Press New York 73 122
38. S. Yamada, H. Sugimoto, M. Kobayashi, A. Ohno, H. Nakamura, and Y. Shiro Structure of PAS-linked histidine kinase and the response regulator complex Structure 17 2009 1333 1344
39. T. Yoshida, S. Phadtare, and M. Inouye The design and development of Tar-EnvZ chimeric receptors Methods Enzymol. 423 2007 166 183 (Pubitemid 46991095)
40. Q. Zhou, P. Ames, and J.S. Parkinson Mutational analyses of HAMP helices suggest a dynamic bundle model of input-output signalling in chemoreceptors Mol. Microbiol. 73 2009 801 814
41. Y. Zhu, L. Qin, T. Yoshida, and M. Inouye Phosphatase activity of histidine kinase EnvZ without kinase catalytic domain Proc. Natl. Acad. Sci. USA 97 2000 7808 7813 (Pubitemid 30460729)