|
|
| (2 intermediate revisions not shown.) |
| Line 1: |
Line 1: |
| | | | |
| | ==Crystal structure of DdrB bound to 30b ssDNA== | | ==Crystal structure of DdrB bound to 30b ssDNA== |
| - | <StructureSection load='4noe' size='340' side='right' caption='[[4noe]], [[Resolution|resolution]] 2.20Å' scene=''> | + | <StructureSection load='4noe' size='340' side='right'caption='[[4noe]], [[Resolution|resolution]] 2.20Å' scene=''> |
| | == Structural highlights == | | == 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 [https://en.wikipedia.org/wiki/Deinococcus_radiodurans Deinococcus radiodurans]. 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 [https://proteopedia.org/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> | + | </td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.2Å</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='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><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'>[https://proteopedia.org/fgij/fg.htm?mol=4noe FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4noe OCA], [https://pdbe.org/4noe PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4noe RCSB], [https://www.ebi.ac.uk/pdbsum/4noe PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4noe ProSAT]</span></td></tr> |
| | </table> | | </table> |
| | == Function == | | == Function == |
| - | [[http://www.uniprot.org/uniprot/DDRB_DEIRA 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.<ref>PMID:15454524</ref> <ref>PMID:19515845</ref> | + | [https://www.uniprot.org/uniprot/DDRB_DEIRA 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.<ref>PMID:15454524</ref> <ref>PMID:19515845</ref> |
| | <div style="background-color:#fffaf0;"> | | <div style="background-color:#fffaf0;"> |
| | == Publication Abstract from PubMed == | | == Publication Abstract from PubMed == |
| Line 22: |
Line 23: |
| | __TOC__ | | __TOC__ |
| | </StructureSection> | | </StructureSection> |
| - | [[Category: Junop, M S]] | + | [[Category: Deinococcus radiodurans]] |
| - | [[Category: Sugiman-Marangos, S N]] | + | [[Category: Large Structures]] |
| - | [[Category: Weiss, Y M]] | + | [[Category: Junop MS]] |
| - | [[Category: Dna binding protein-dna complex]] | + | [[Category: Sugiman-Marangos SN]] |
| - | [[Category: Single-stranded dna annealing]] | + | [[Category: Weiss YM]] |
| Structural highlights
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
|
