2a1k: Difference between revisions

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-[[Image:2a1k.png|left|200px]]
-{{STRUCTURE_2a1k|  PDB=2a1k  |  SCENE=  }}
+==RB69 single-stranded DNA binding protein core domain==
+<StructureSection load='2a1k' size='340' side='right'caption='[[2a1k]], [[Resolution|resolution]] 2.00&Aring;' scene=''>
+== Structural highlights ==
+<table><tr><td colspan='2'>[[2a1k]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Escherichia_phage_RB69 Escherichia phage RB69]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2A1K OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2A1K FirstGlance]. <br>
+</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&#8491;</td></tr>
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ZN:ZINC+ION'>ZN</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=2a1k FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2a1k OCA], [https://pdbe.org/2a1k PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2a1k RCSB], [https://www.ebi.ac.uk/pdbsum/2a1k PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2a1k ProSAT]</span></td></tr>
+</table>
+== Function ==
+[https://www.uniprot.org/uniprot/Q7Y265_BPR69 Q7Y265_BPR69]
+== Evolutionary Conservation ==
+[[Image:Consurf_key_small.gif|200px|right]]
+Check<jmol>
+  <jmolCheckbox>
+    <scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/a1/2a1k_consurf.spt"</scriptWhenChecked>
+    <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
+    <text>to colour the structure by Evolutionary Conservation</text>
+  </jmolCheckbox>
+</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/main_output.php?pdb_ID=2a1k ConSurf].
+<div style="clear:both"></div>
+<div style="background-color:#fffaf0;">
+== Publication Abstract from PubMed ==
+In vivo, replicative DNA polymerases are made more processive by their interactions with accessory proteins at the replication fork. Single-stranded DNA binding protein (SSB) is an essential protein that binds tightly and cooperatively to single-stranded DNA during replication to remove adventitious secondary structures and protect the exposed DNA from endogenous nucleases. Using information from high resolution structures and biochemical data, we have engineered a functional chimeric enzyme of the bacteriophage RB69 DNA polymerase and SSB with substantially increased processivity. Fusion of RB69 DNA polymerase with its cognate SSB via a short six amino acid linker increases affinity for primer-template DNA by sixfold and subsequently increases processivity by sevenfold while maintaining fidelity. The crystal structure of this fusion protein was solved by a combination of multiwavelength anomalous diffraction and molecular replacement to 3.2 A resolution and shows that RB69 SSB is positioned proximal to the N-terminal domain of RB69 DNA polymerase near the template strand channel. The structural and biochemical data suggest that SSB interactions with DNA polymerase are transient and flexible, consistent with models of a dynamic replisome during elongation.
-===RB69 single-stranded DNA binding protein core domain===
+Structure and enzymatic properties of a chimeric bacteriophage RB69 DNA polymerase and single-stranded DNA binding protein with increased processivity.,Sun S, Geng L, Shamoo Y Proteins. 2006 Oct 1;65(1):231-8. PMID:16881051<ref>PMID:16881051</ref>
-{{ABSTRACT_PUBMED_16881051}}
+From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
+</div>
+<div class="pdbe-citations 2a1k" style="background-color:#fffaf0;"></div>
-==About this Structure==
+==See Also==
-[[2a1k]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Enterobacteria_phage_rb69 Enterobacteria phage rb69]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2A1K OCA].
+*[[Single-stranded DNA-binding protein 3D structures|Single-stranded DNA-binding protein 3D structures]]
+== References ==
-==Reference==
+<references/>
-<ref group="xtra">PMID:016881051</ref><references group="xtra"/>
+__TOC__
-[[Category: Enterobacteria phage rb69]]
+</StructureSection>
-[[Category: Geng, L.]]
+[[Category: Escherichia phage RB69]]
-[[Category: Shamoo, Y.]]
+[[Category: Large Structures]]
-[[Category: Sun, S.]]
+[[Category: Geng L]]
-[[Category: 5-stranded beta-sheet]]
+[[Category: Shamoo Y]]
-[[Category: Dna binding protein]]
+[[Category: Sun S]]
-[[Category: Ob fold]]
-[[Category: Single-stranded dna binding]]
-[[Category: Zn2+ binding subdomain]]