1p4d: Difference between revisions

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[[Image:1p4d.gif|left|200px]]
{{Seed}}
[[Image:1p4d.png|left|200px]]


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{{STRUCTURE_1p4d|  PDB=1p4d  |  SCENE=  }}  
{{STRUCTURE_1p4d|  PDB=1p4d  |  SCENE=  }}  


'''F factor TraI Relaxase Domain'''
===F factor TraI Relaxase Domain===




==Overview==
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Conjugative plasmid transfer between bacteria disseminates antibiotic resistance and diversifies prokaryotic genomes. Relaxases, proteins essential for conjugation, cleave one plasmid strand sequence specifically prior to transfer. Cleavage occurs through a Mg(2+)-dependent transesterification involving a tyrosyl hydroxyl and a DNA phosphate. The structure of the F plasmid TraI relaxase domain, described here, is a five-strand beta sheet flanked by alpha helices. The protein resembles replication initiator protein AAV-5 Rep but is circularly permuted, yielding a different topology. The beta sheet forms a binding cleft lined with neutral, nonaromatic residues, unlike most single-stranded DNA binding proteins which use aromatic and charged residues. The cleft contains depressions, suggesting base recognition occurs in a knob-into-hole fashion. Unlike most nucleases, three histidines but no acidic residues coordinate a Mg(2+) located near the catalytic tyrosine. The full positive charge on the Mg(2+) and the architecture of the active site suggest multiple roles for Mg(2+) in DNA cleavage.
The line below this paragraph, {{ABSTRACT_PUBMED_14604527}}, adds the Publication Abstract to the page
(as it appears on PubMed at http://www.pubmed.gov), where 14604527 is the PubMed ID number.
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{{ABSTRACT_PUBMED_14604527}}


==About this Structure==
==About this Structure==
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[[Category: 5-strand antiparallel beta sheet]]
[[Category: 5-strand antiparallel beta sheet]]
[[Category: Alpha-beta]]
[[Category: Alpha-beta]]
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sat May  3 04:40:16 2008''
 
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Jul 29 12:03:02 2008''

Revision as of 09:03, 29 July 2008

File:1p4d.png

Template:STRUCTURE 1p4d

F factor TraI Relaxase Domain

Template:ABSTRACT PUBMED 14604527

About this Structure

1P4D is a Single protein structure of sequence from Escherichia coli. Full crystallographic information is available from OCA.

Reference

Structural insights into single-stranded DNA binding and cleavage by F factor TraI., Datta S, Larkin C, Schildbach JF, Structure. 2003 Nov;11(11):1369-79. PMID:14604527

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