1bdx

From Proteopedia

(Difference between revisions)

Current revision

E. COLI DNA HELICASE RUVA WITH BOUND DNA HOLLIDAY JUNCTION, ALPHA CARBONS AND PHOSPHATE ATOMS ONLY

Structural highlights

1bdx is a 8 chain structure with sequence from Escherichia coli BL21(DE3). Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:	X-ray diffraction, Resolution 6Å
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

RUVA_ECOLI The RuvA-RuvB complex in the presence of ATP renatures cruciform structure in supercoiled DNA with palindromic sequence, indicating that it may promote strand exchange reactions in homologous recombination. RuvAB is a helicase that mediates the Holliday junction migration by localized denaturation and reannealing. RuvA stimulates, in the presence of DNA, the weak ATPase activity of RuvB. Binds both single- and double-stranded DNA (dsDNA). Binds preferentially to supercoiled rather than to relaxed dsDNA.^[1]

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

Here we present the crystal structure of the Escherichia coli protein RuvA bound to a key DNA intermediate in recombination, the Holliday junction. The structure, solved by isomorphous replacement and density modification at 6 A resolution, reveals the molecular architecture at the heart of the branch migration and resolution reactions required to process Holliday intermediates into recombinant DNA molecules. It also reveals directly for the first time the structure of the Holliday junction. A single RuvA tetramer is bound to one face of a junction whose four DNA duplex arms are arranged in an open and essentially four-fold symmetric conformation. Protein-DNA contacts are mediated by two copies of a helix-hairpin-helix motif per RuvA subunit that contact the phosphate backbone in a very similar manner. The open structure of the junction stabilized by RuvA binding exposes a DNA surface that could be bound by the RuvC endonuclease to promote resolution.

Crystal structure of E.coli RuvA with bound DNA Holliday junction at 6 A resolution.,Hargreaves D, Rice DW, Sedelnikova SE, Artymiuk PJ, Lloyd RG, Rafferty JB Nat Struct Biol. 1998 Jun;5(6):441-6. PMID:9628481^[2]

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

References

↑ Tsaneva IR, Muller B, West SC. RuvA and RuvB proteins of Escherichia coli exhibit DNA helicase activity in vitro. Proc Natl Acad Sci U S A. 1993 Feb 15;90(4):1315-9. PMID:8433990
↑ Hargreaves D, Rice DW, Sedelnikova SE, Artymiuk PJ, Lloyd RG, Rafferty JB. Crystal structure of E.coli RuvA with bound DNA Holliday junction at 6 A resolution. Nat Struct Biol. 1998 Jun;5(6):441-6. PMID:9628481

1 Structural highlights
2 Function
3 Evolutionary Conservation
4 Publication Abstract from PubMed
5 See Also
6 References

Proteopedia Page Contributors and Editors (what is this?)

OCA

Retrieved from "http://52.214.119.220/wiki/index.php/1bdx"

@@ Line 3: / Line 3: @@
 <StructureSection load='1bdx' size='340' side='right'caption='[[1bdx]], [[Resolution|resolution]] 6.00&Aring;' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[1bdx]] is a 8 chain structure with sequence from [https://en.wikipedia.org/wiki/Ecobd Ecobd]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1BDX OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1BDX FirstGlance]. <br>
+<table><tr><td colspan='2'>[[1bdx]] is a 8 chain structure with sequence from [https://en.wikipedia.org/wiki/Escherichia_coli_BL21(DE3) Escherichia coli BL21(DE3)]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1BDX OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1BDX FirstGlance]. <br>
-</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=1bdx FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1bdx OCA], [https://pdbe.org/1bdx PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1bdx RCSB], [https://www.ebi.ac.uk/pdbsum/1bdx PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1bdx ProSAT]</span></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]] 6&#8491;</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=1bdx FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1bdx OCA], [https://pdbe.org/1bdx PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1bdx RCSB], [https://www.ebi.ac.uk/pdbsum/1bdx PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1bdx ProSAT]</span></td></tr>
 </table>
 == Function ==
-[[https://www.uniprot.org/uniprot/RUVA_ECOLI RUVA_ECOLI]] The RuvA-RuvB complex in the presence of ATP renatures cruciform structure in supercoiled DNA with palindromic sequence, indicating that it may promote strand exchange reactions in homologous recombination. RuvAB is a helicase that mediates the Holliday junction migration by localized denaturation and reannealing. RuvA stimulates, in the presence of DNA, the weak ATPase activity of RuvB. Binds both single- and double-stranded DNA (dsDNA). Binds preferentially to supercoiled rather than to relaxed dsDNA.<ref>PMID:8433990</ref>
+[https://www.uniprot.org/uniprot/RUVA_ECOLI RUVA_ECOLI] The RuvA-RuvB complex in the presence of ATP renatures cruciform structure in supercoiled DNA with palindromic sequence, indicating that it may promote strand exchange reactions in homologous recombination. RuvAB is a helicase that mediates the Holliday junction migration by localized denaturation and reannealing. RuvA stimulates, in the presence of DNA, the weak ATPase activity of RuvB. Binds both single- and double-stranded DNA (dsDNA). Binds preferentially to supercoiled rather than to relaxed dsDNA.<ref>PMID:8433990</ref>
 == Evolutionary Conservation ==
 [[Image:Consurf_key_small.gif|200px|right]]
@@ Line 34: / Line 35: @@
 __TOC__
 </StructureSection>
-[[Category: Ecobd]]
 [[Category: Large Structures]]
-[[Category: Artymiuk, P J]]
+[[Category: Artymiuk PJ]]
-[[Category: Hargreaves, D]]
+[[Category: Hargreaves D]]
-[[Category: Lloyd, R G]]
+[[Category: Lloyd RG]]
-[[Category: Rafferty, J B]]
+[[Category: Rafferty JB]]
-[[Category: Rice, D W]]
+[[Category: Rice DW]]
-[[Category: Sedelnikova, S E]]
+[[Category: Sedelnikova SE]]
-[[Category: Branch migration]]
-[[Category: Complex dna-binding protein-dna]]
-[[Category: Dna-binding]]
-[[Category: Holliday junction]]
-[[Category: Ruv]]
-[[Category: Transferase-dna complex]]

1bdx

From Proteopedia

Current revision

E. COLI DNA HELICASE RUVA WITH BOUND DNA HOLLIDAY JUNCTION, ALPHA CARBONS AND PHOSPHATE ATOMS ONLY

Structural highlights

Function

Evolutionary Conservation

Publication Abstract from PubMed

See Also

References

Contents

Proteopedia Page Contributors and Editors (what is this?)

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