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1ram

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[[Image:1ram.jpg|left|200px]]
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{{STRUCTURE_1ram| PDB=1ram | SCENE= }}
{{STRUCTURE_1ram| PDB=1ram | SCENE= }}
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'''A NOVEL DNA RECOGNITION MODE BY NF-KB P65 HOMODIMER'''
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===A NOVEL DNA RECOGNITION MODE BY NF-KB P65 HOMODIMER===
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==Overview==
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The crystal structure of the NF-kappa B p65 (RelA) homodimer in complex with a DNA target has been determined to 2.4 A resolution. The two p65 subunits are not symmetrically disposed on the DNA target. The homodimer should optimally bind to a pseudo-palindromic nine base pair target with each subunit recognizing a 5'GGAA-3' half site separated by a central A-T base pair. However, one of the subunits (subunit B) encounters a half site of 5'-GAAA-3'. The single base-pair change from G-C to A-T results in highly unfavorable interactions between this half site and the base contacting protein residues in subunit B, which leads to an 18 degrees rotation of the N-terminal terminal domain from its normal conformation. Remarkably, subunit B retains all the interactions with the sugar phosphate backbone of the DNA target. This mode of interaction allows the NF-kappa B p65 homodimer to recognize DNA targets containing only one cognate half site. Differences in the sequence of the other half site provide variations in conformation and affinity of the complex.
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The line below this paragraph, {{ABSTRACT_PUBMED_9437432}}, adds the Publication Abstract to the page
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(as it appears on PubMed at http://www.pubmed.gov), where 9437432 is the PubMed ID number.
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{{ABSTRACT_PUBMED_9437432}}
==About this Structure==
==About this Structure==
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[[Category: Rel]]
[[Category: Rel]]
[[Category: Transcription regulation]]
[[Category: Transcription regulation]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sat May 3 07:16:41 2008''
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sun Jul 27 19:52:11 2008''

Revision as of 16:52, 27 July 2008

Image:1ram.png

Template:STRUCTURE 1ram

A NOVEL DNA RECOGNITION MODE BY NF-KB P65 HOMODIMER

Template:ABSTRACT PUBMED 9437432

About this Structure

1RAM is a Single protein structure of sequence from Mus musculus. Full crystallographic information is available from OCA.

Reference

A novel DNA recognition mode by the NF-kappa B p65 homodimer., Chen YQ, Ghosh S, Ghosh G, Nat Struct Biol. 1998 Jan;5(1):67-73. PMID:9437432

Page seeded by OCA on Sun Jul 27 19:52:11 2008

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