1j1v

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[[Image:1j1v.gif|left|200px]]
[[Image:1j1v.gif|left|200px]]
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{{Structure
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|PDB= 1j1v |SIZE=350|CAPTION= <scene name='initialview01'>1j1v</scene>, resolution 2.1&Aring;
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The line below this paragraph, containing "STRUCTURE_1j1v", creates the "Structure Box" on the page.
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|SITE=
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You may change the PDB parameter (which sets the PDB file loaded into the applet)
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|LIGAND= <scene name='pdbligand=DA:2&#39;-DEOXYADENOSINE-5&#39;-MONOPHOSPHATE'>DA</scene>, <scene name='pdbligand=DC:2&#39;-DEOXYCYTIDINE-5&#39;-MONOPHOSPHATE'>DC</scene>, <scene name='pdbligand=DG:2&#39;-DEOXYGUANOSINE-5&#39;-MONOPHOSPHATE'>DG</scene>, <scene name='pdbligand=DT:THYMIDINE-5&#39;-MONOPHOSPHATE'>DT</scene>, <scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene>
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or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
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|GENE= DnaA ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=562 Escherichia coli])
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|DOMAIN=
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{{STRUCTURE_1j1v| PDB=1j1v | SCENE= }}
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|RELATEDENTRY=
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|RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1j1v FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1j1v OCA], [http://www.ebi.ac.uk/pdbsum/1j1v PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=1j1v RCSB]</span>
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'''Crystal structure of DnaA domainIV complexed with DnaAbox DNA'''
'''Crystal structure of DnaA domainIV complexed with DnaAbox DNA'''
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[[Category: Terada, T.]]
[[Category: Terada, T.]]
[[Category: Yokoyama, S.]]
[[Category: Yokoyama, S.]]
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[[Category: protein-dna complex]]
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[[Category: Protein-dna complex]]
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[[Category: replication]]
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[[Category: Replication]]
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[[Category: riken structural genomics/proteomics initiative]]
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[[Category: Riken structural genomics/proteomics initiative]]
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[[Category: rsgi]]
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[[Category: Rsgi]]
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[[Category: structural genomic]]
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[[Category: Structural genomic]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Fri May 2 20:42:14 2008''
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sun Mar 30 21:27:44 2008''
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Revision as of 17:42, 2 May 2008

Image:1j1v.gif

Template:STRUCTURE 1j1v

Crystal structure of DnaA domainIV complexed with DnaAbox DNA


Overview

Escherichia coli DnaA binds to 9 bp sequences (DnaA boxes) in the replication origin, oriC, to form a complex initiating chromosomal DNA replication. In the present study, we determined the crystal structure of its DNA-binding domain (domain IV) complexed with a DnaA box at 2.1 A resolution. DnaA domain IV contains a helix-turn-helix motif for DNA binding. One helix and a loop of the helix- turn-helix motif are inserted into the major groove and 5 bp (3' two-thirds of the DnaA box sequence) are recognized through base-specific hydrogen bonds and van der Waals contacts with the C5-methyl groups of thymines. In the minor groove, Arg399, located in the loop adjacent to the motif, recognizes three more base pairs (5' one-third of the DnaA box sequence) by base-specific hydrogen bonds. DNA bending by approximately 28 degrees was also observed in the complex. These base-specific interactions explain how DnaA exhibits higher affinity for the strong DnaA boxes (R1, R2 and R4) than the weak DnaA boxes (R3 and M) in the replication origin.

About this Structure

1J1V is a Single protein structure of sequence from Escherichia coli. Full crystallographic information is available from OCA.

Reference

Structural basis of replication origin recognition by the DnaA protein., Fujikawa N, Kurumizaka H, Nureki O, Terada T, Shirouzu M, Katayama T, Yokoyama S, Nucleic Acids Res. 2003 Apr 15;31(8):2077-86. PMID:12682358 Page seeded by OCA on Fri May 2 20:42:14 2008

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