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| | ==Crystal structure of Pi initiator protein in complex with iteron DNA== | | ==Crystal structure of Pi initiator protein in complex with iteron DNA== |
| - | <StructureSection load='2nra' size='340' side='right' caption='[[2nra]], [[Resolution|resolution]] 3.10Å' scene=''> | + | <StructureSection load='2nra' size='340' side='right'caption='[[2nra]], [[Resolution|resolution]] 3.10Å' scene=''> |
| | == Structural highlights == | | == Structural highlights == |
| - | <table><tr><td colspan='2'>[[2nra]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/"bacillus_coli"_migula_1895 "bacillus coli" migula 1895]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2NRA OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2NRA FirstGlance]. <br> | + | <table><tr><td colspan='2'>[[2nra]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2NRA OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2NRA FirstGlance]. <br> |
| - | </td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">pir ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=562 "Bacillus coli" Migula 1895])</td></tr> | + | </td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 3.1Å</td></tr> |
| - | <tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2nra FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2nra OCA], [http://pdbe.org/2nra PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2nra RCSB], [http://www.ebi.ac.uk/pdbsum/2nra PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2nra ProSAT]</span></td></tr> | + | <tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=2nra FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2nra OCA], [https://pdbe.org/2nra PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2nra RCSB], [https://www.ebi.ac.uk/pdbsum/2nra PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2nra ProSAT]</span></td></tr> |
| | </table> | | </table> |
| | == Function == | | == Function == |
| - | [[http://www.uniprot.org/uniprot/PIR_ECOLX PIR_ECOLX]] Initiation for plasmid R6K DNA replication. | + | [https://www.uniprot.org/uniprot/PIR_ECOLX PIR_ECOLX] Initiation for plasmid R6K DNA replication. |
| | == Evolutionary Conservation == | | == Evolutionary Conservation == |
| | [[Image:Consurf_key_small.gif|200px|right]] | | [[Image:Consurf_key_small.gif|200px|right]] |
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| | __TOC__ | | __TOC__ |
| | </StructureSection> | | </StructureSection> |
| - | [[Category: Bacillus coli migula 1895]] | + | [[Category: Escherichia coli]] |
| - | [[Category: Bastia, D]] | + | [[Category: Large Structures]] |
| - | [[Category: Davies, C]] | + | [[Category: Bastia D]] |
| - | [[Category: Swan, M K]] | + | [[Category: Davies C]] |
| - | [[Category: Dna replication]] | + | [[Category: Swan MK]] |
| - | [[Category: Protein-dna complex]]
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| - | [[Category: Replication-dna complex]]
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| Structural highlights
Function
PIR_ECOLX Initiation for plasmid R6K DNA replication.
Evolutionary Conservation
Check, as determined by ConSurfDB. You may read the explanation of the method and the full data available from ConSurf.
Publication Abstract from PubMed
We have determined the crystal structure of a monomeric biologically active form of the pi initiator protein of plasmid R6K as a complex with a single copy of its cognate DNA-binding site (iteron) at 3.1-A resolution. The initiator belongs to the family of winged helix type of proteins. The structure reveals that the protein contacts the iteron DNA at two primary recognition helices, namely the C-terminal alpha4' and the N-terminal alpha4 helices, that recognize the 5' half and the 3' half of the 22-bp iteron, respectively. The base-amino acid contacts are all located in alpha4', whereas the alpha4 helix and its vicinity mainly contact the phosphate groups of the iteron. Mutational analyses show that the contacts of both recognition helices with DNA are necessary for iteron binding and replication initiation. Considerations of a large number of site-directed mutations reveal that two distinct regions, namely alpha2 and alpha5 and its vicinity, are required for DNA looping and initiator dimerization, respectively. Further analysis of mutant forms of pi revealed the possible domain that interacts with the DnaB helicase. Thus, the structure-function analysis presented illuminates aspects of initiation mechanism of R6K and its control.
Crystal structure of pi initiator protein-iteron complex of plasmid R6K: implications for initiation of plasmid DNA replication.,Swan MK, Bastia D, Davies C Proc Natl Acad Sci U S A. 2006 Dec 5;103(49):18481-6. Epub 2006 Nov 21. PMID:17124167[1]
From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.
References
- ↑ Swan MK, Bastia D, Davies C. Crystal structure of pi initiator protein-iteron complex of plasmid R6K: implications for initiation of plasmid DNA replication. Proc Natl Acad Sci U S A. 2006 Dec 5;103(49):18481-6. Epub 2006 Nov 21. PMID:17124167
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