4noe

From Proteopedia

(Difference between revisions)

Revision as of 12:56, 16 November 2017

Crystal structure of DdrB bound to 30b ssDNA

Structural highlights

4noe is a 6 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.
Ligands:
Gene:	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

Accurate pairing of DNA strands is essential for repair of DNA double-strand breaks (DSBs). How cells achieve accurate annealing when large regions of single-strand DNA are unpaired has remained unclear despite many efforts focused on understanding proteins, which mediate this process. Here we report the crystal structure of a single-strand annealing protein [DdrB (DNA damage response B)] in complex with a partially annealed DNA intermediate to 2.2 A. This structure and supporting biochemical data reveal a mechanism for accurate annealing involving DdrB-mediated proofreading of strand complementarity. DdrB promotes high-fidelity annealing by constraining specific bases from unauthorized association and only releases annealed duplex when bound strands are fully complementary. To our knowledge, this mechanism provides the first understanding for how cells achieve accurate, protein-assisted strand annealing under biological conditions that would otherwise favor misannealing.

Mechanism for accurate, protein-assisted DNA annealing by Deinococcus radiodurans DdrB.,Sugiman-Marangos SN, Weiss YM, Junop MS Proc Natl Acad Sci U S A. 2016 Apr 19;113(16):4308-13. doi:, 10.1073/pnas.1520847113. Epub 2016 Apr 4. PMID:27044084^[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, Weiss YM, Junop MS. Mechanism for accurate, protein-assisted DNA annealing by Deinococcus radiodurans DdrB. Proc Natl Acad Sci U S A. 2016 Apr 19;113(16):4308-13. doi:, 10.1073/pnas.1520847113. Epub 2016 Apr 4. PMID:27044084 doi:http://dx.doi.org/10.1073/pnas.1520847113

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/4noe"

@@ Line 3: / Line 3: @@
 <StructureSection load='4noe' size='340' side='right' caption='[[4noe]], [[Resolution|resolution]] 2.20&Aring;' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[4noe]] is a 6 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4NOE OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4NOE FirstGlance]. <br>
+<table><tr><td colspan='2'>[[4noe]] is a 6 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=4NOE OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4NOE FirstGlance]. <br>
 </td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene></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=4noe FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4noe OCA], [http://pdbe.org/4noe PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4noe RCSB], [http://www.ebi.ac.uk/pdbsum/4noe PDBsum]</span></td></tr>
+<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">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=4noe FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4noe OCA], [http://pdbe.org/4noe PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4noe RCSB], [http://www.ebi.ac.uk/pdbsum/4noe PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4noe ProSAT]</span></td></tr>
 </table>
 == Function ==
@@ Line 22: / Line 23: @@
 __TOC__
 </StructureSection>
+[[Category: Micrococcus radiodurans raj et al. 1960]]
 [[Category: Junop, M S]]
 [[Category: Sugiman-Marangos, S N]]

4noe

From Proteopedia

Revision as of 12:56, 16 November 2017

Crystal structure of DdrB bound to 30b ssDNA

Structural highlights

Function

Publication Abstract from PubMed

References

Contents

Proteopedia Page Contributors and Editors (what is this?)

Views

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