1ube: Difference between revisions

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-{{Seed}}
-[[Image:1ube.png|left|200px]]
-<!--
+==MsRecA-ADP Complex==
-The line below this paragraph, containing "STRUCTURE_1ube", creates the "Structure Box" on the page.
+<StructureSection load='1ube' size='340' side='right'caption='[[1ube]], [[Resolution|resolution]] 3.30&Aring;' scene=''>
-You may change the PDB parameter (which sets the PDB file loaded into the applet)
+== Structural highlights ==
-or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
+<table><tr><td colspan='2'>[[1ube]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Mycolicibacterium_smegmatis Mycolicibacterium smegmatis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1UBE OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1UBE FirstGlance]. <br>
-or leave the SCENE parameter empty for the default display.
+</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 3.3&#8491;</td></tr>
--->
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ADP:ADENOSINE-5-DIPHOSPHATE'>ADP</scene></td></tr>
-{{STRUCTURE_1ube|  PDB=1ube  |  SCENE=  }}
+<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1ube FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1ube OCA], [https://pdbe.org/1ube PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1ube RCSB], [https://www.ebi.ac.uk/pdbsum/1ube PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1ube ProSAT]</span></td></tr>
+</table>
+== Function ==
+[https://www.uniprot.org/uniprot/RECA_MYCS2 RECA_MYCS2] Required for homologous recombination (HR) and the bypass of mutagenic DNA lesions (double strand breaks, DSB) by the SOS response. Can catalyze the hydrolysis of ATP in the presence of single-stranded DNA, the ATP-dependent uptake of single-stranded DNA by duplex DNA, and the ATP-dependent hybridization of homologous single-stranded DNAs. Numerous X-ray crystals have been resolved under different conditions which indicate the flexibility of the protein, essential to its function. Gln-196 contributes to this plasticity by acting as a switch residue, which transmits the effect of nucleotide binding to the DNA-binding region.<ref>PMID:17360246</ref> <ref>PMID:17496093</ref> <ref>PMID:21219454</ref>
+== 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/ub/1ube_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=1ube ConSurf].
+<div style="clear:both"></div>
+<div style="background-color:#fffaf0;">
+== Publication Abstract from PubMed ==
+The crystal structures of Mycobacterium smegmatis RecA (RecA(Ms)) and its complexes with ADP, ATPgammaS, and dATP show that RecA(Ms) has an expanded binding site like that in Mycobacterium tuberculosis RecA, although there are small differences between the proteins in their modes of nucleotide binding. Nucleotide binding is invariably accompanied by the movement of Gln 196, which appears to provide the trigger for transmitting the effect of nucleotide binding to the DNA-binding loops. These observations provide a framework for exploring the known properties of the RecA proteins.
-===MsRecA-ADP Complex===
+Crystal structures of Mycobacterium smegmatis RecA and its nucleotide complexes.,Datta S, Krishna R, Ganesh N, Chandra NR, Muniyappa K, Vijayan M J Bacteriol. 2003 Jul;185(14):4280-4. PMID:12837805<ref>PMID:12837805</ref>
+From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
+</div>
+<div class="pdbe-citations 1ube" style="background-color:#fffaf0;"></div>
-<!--
+==See Also==
-The line below this paragraph, {{ABSTRACT_PUBMED_12837805}}, adds the Publication Abstract to the page
+*[[3D structures of recombinase A|3D structures of recombinase A]]
-(as it appears on PubMed at http://www.pubmed.gov), where 12837805 is the PubMed ID number.
+== References ==
--->
+<references/>
-{{ABSTRACT_PUBMED_12837805}}
+__TOC__
+</StructureSection>
-==About this Structure==
+[[Category: Large Structures]]
-UBE is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Mycobacterium_smegmatis Mycobacterium smegmatis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1UBE OCA].
+[[Category: Mycolicibacterium smegmatis]]
+[[Category: Chandra NR]]
-==Reference==
+[[Category: Datta S]]
-Crystal structures of Mycobacterium smegmatis RecA and its nucleotide complexes., Datta S, Krishna R, Ganesh N, Chandra NR, Muniyappa K, Vijayan M, J Bacteriol. 2003 Jul;185(14):4280-4. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/12837805 12837805]
+[[Category: Ganesh N]]
-[[Category: Mycobacterium smegmatis]]
+[[Category: Krishna R]]
-[[Category: Single protein]]
+[[Category: Muniyappa K]]
-[[Category: Chandra, N R.]]
+[[Category: Vijayan M]]
-[[Category: Datta, S.]]
-[[Category: Ganesh, N.]]
-[[Category: Krishna, R.]]
-[[Category: Muniyappa, K.]]
-[[Category: Vijayan, M.]]
-[[Category: Dna-repair]]
-[[Category: Recombination]]
-''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Jul 29 09:16:44 2008''