2z33: Difference between revisions

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[[Image:2z33.jpg|left|200px]]
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{{STRUCTURE_2z33|  PDB=2z33  |  SCENE=  }}  
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'''Solution structure of the DNA complex of PhoB DNA-binding/transactivation Domain'''
===Solution structure of the DNA complex of PhoB DNA-binding/transactivation Domain===




==Overview==
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The solution structure of the complex between the transcription factor PhoB DNA-binding/transactivation domain and DNA was determined by NMR spectroscopy and simulated annealing in a periodic boundary box of explicit water with the particle mesh Ewald method. The refined structures provided better convergence and better local geometry compared with the structures determined in vacuum. The hydrogen bond interactions between the PhoB domain and DNA in the aqueous environment were fully formed. The complex structure was found to be very similar to the crystal structure, particularly at the PhoB-DNA interface, much more so than expected from the vacuum structure. These results indicate the importance of the proper treatment of electrostatic and hydration influences in describing protein-DNA interactions. The hydration structures observed for the refined structures contained most of the crystal waters as a subset. We observed that various water-mediated PhoB-DNA interactions contributed to the molecular recognition between PhoB and DNA. Proteins 2008. (c) 2008 Wiley-Liss, Inc.
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==About this Structure==
==About this Structure==
2Z33 is a [[Protein complex]] structure of sequences from [http://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2Z33 OCA].  
2Z33 is a [[Protein complex]] structure of sequences from [http://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2Z33 OCA].  


==Reference==
==Reference==
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[[Category: Transcription/dna complex]]
[[Category: Transcription/dna complex]]
[[Category: Winged helix-turn-helix]]
[[Category: Winged helix-turn-helix]]
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Apr 24 09:44:20 2008''
 
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Jul 29 08:42:14 2008''

Revision as of 05:42, 29 July 2008

File:2z33.png

Template:STRUCTURE 2z33

Solution structure of the DNA complex of PhoB DNA-binding/transactivation Domain

Template:ABSTRACT PUBMED 18186481

About this Structure

2Z33 is a Protein complex structure of sequences from Escherichia coli. Full experimental information is available from OCA.

Reference

Water-mediated interactions between DNA and PhoB DNA-binding/transactivation domain: NMR-restrained molecular dynamics in explicit water environment., Yamane T, Okamura H, Ikeguchi M, Nishimura Y, Kidera A, Proteins. 2008 Jan 10;. PMID:18186481

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