4hqb

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Revision as of 14:45, 4 August 2016

Crystal structure of DdrB from Deinococcus radiodurans bound to ssDNA

Structural highlights

4hqb is a 7 chain structure with sequence from "micrococcus_radiodurans"_raj_et_al._1960 "micrococcus radiodurans" raj et al. 1960. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Gene:	ddrB, ddrB (DR0070), DR_0070 ("Micrococcus radiodurans" Raj et al. 1960)
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

[DDRB_DEIRA] ssDNA-binding protein that contributes to the ionizing radiation resistance of D.radiodurans. Appears to play a role in DNA repair and genome reconstitution, in a RecA-independent process, and is necessary for recovery from severe genomic fragmentation as a result of exposure to severe levels of ionizing radiation. Binds single-stranded DNA but not duplex DNA.^[1] ^[2]

Publication Abstract from PubMed

The ability of Deinococcus radiodurans to recover from extensive DNA damage is due in part to its ability to efficiently repair its genome, even following severe fragmentation by hundreds of double-strand breaks. The single-strand annealing pathway plays an important role early during the recovery process, making use of a protein, DdrB, shown to greatly stimulate ssDNA annealing. Here, we report the structure of DdrB bound to ssDNA to 2.3 A. Pentameric DdrB was found to assemble into higher-order structures that coat ssDNA. To gain further mechanistic insight into the protein's function, a number of point mutants were generated altering both DNA binding and higher order oligomerization. This work not only identifies higher-order DdrB associations but also suggests the presence of an extended DNA binding surface running along the 'top' surface of a DdrB pentamer and continuing down between two individual subunits of the ring structure. Together this work sheds new insight into possible mechanisms for DdrB function in which higher-order assemblies of DdrB pentamers assist in the pairing of complementary ssDNA using an extended DNA binding surface.

Crystal structure of the DdrB/ssDNA complex from Deinococcus radiodurans reveals a DNA binding surface involving higher-order oligomeric states.,Sugiman-Marangos SN, Peel JK, Weiss YM, Ghirlando R, Junop MS Nucleic Acids Res. 2013 Aug 23. PMID:23975200^[3]

From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.

References

↑ Tanaka M, Earl AM, Howell HA, Park MJ, Eisen JA, Peterson SN, Battista JR. Analysis of Deinococcus radiodurans's transcriptional response to ionizing radiation and desiccation reveals novel proteins that contribute to extreme radioresistance. Genetics. 2004 Sep;168(1):21-33. PMID:15454524 doi:http://dx.doi.org/10.1534/genetics.104.029249
↑ Norais CA, Chitteni-Pattu S, Wood EA, Inman RB, Cox MM. DdrB protein, an alternative Deinococcus radiodurans SSB induced by ionizing radiation. J Biol Chem. 2009 Aug 7;284(32):21402-11. doi: 10.1074/jbc.M109.010454. Epub 2009, Jun 10. PMID:19515845 doi:http://dx.doi.org/10.1074/jbc.M109.010454
↑ Sugiman-Marangos SN, Peel JK, Weiss YM, Ghirlando R, Junop MS. Crystal structure of the DdrB/ssDNA complex from Deinococcus radiodurans reveals a DNA binding surface involving higher-order oligomeric states. Nucleic Acids Res. 2013 Aug 23. PMID:23975200 doi:10.1093/nar/gkt759

1 Structural highlights
2 Function
3 Publication Abstract from PubMed
4 References

Proteopedia Page Contributors and Editors (what is this?)

OCA

Retrieved from "http://52.214.119.220/wiki/index.php/4hqb"

Categories: Micrococcus radiodurans raj et al. 1960 | Junop, M S | Sugiman-Marangos, S N | Dna annealing | Dna binding protein-dna complex

@@ Line 1: / Line 1: @@
 ==Crystal structure of DdrB from Deinococcus radiodurans bound to ssDNA==
 <StructureSection load='4hqb' size='340' side='right' caption='[[4hqb]], [[Resolution|resolution]] 2.30&Aring;' scene=''>
@@ Line 4: / Line 5: @@
 <table><tr><td colspan='2'>[[4hqb]] is a 7 chain structure with sequence from [http://en.wikipedia.org/wiki/"micrococcus_radiodurans"_raj_et_al._1960 "micrococcus radiodurans" raj et al. 1960]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4HQB OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4HQB FirstGlance]. <br>
 </td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">ddrB, ddrB (DR0070), DR_0070 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1299 "Micrococcus radiodurans" Raj et al. 1960])</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=4hqb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4hqb OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4hqb RCSB], [http://www.ebi.ac.uk/pdbsum/4hqb PDBsum]</span></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=4hqb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4hqb OCA], [http://pdbe.org/4hqb PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4hqb RCSB], [http://www.ebi.ac.uk/pdbsum/4hqb PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4hqb ProSAT]</span></td></tr>
 </table>
 == Function ==
@@ Line 16: / Line 17: @@
 From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
 </div>
+<div class="pdbe-citations 4hqb" style="background-color:#fffaf0;"></div>
 == References ==
 <references/>

4hqb

From Proteopedia

Revision as of 14:45, 4 August 2016

Crystal structure of DdrB from Deinococcus radiodurans bound to ssDNA

Structural highlights

Function

Publication Abstract from PubMed

References

Contents

Proteopedia Page Contributors and Editors (what is this?)

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