3mr5: Difference between revisions

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-{{Seed}}
-[[Image:3mr5.png|left|200px]]
-<!--
+==Human DNA polymerase eta - DNA ternary complex with a CPD 1bp upstream of the active site (TT3)==
-The line below this paragraph, containing "STRUCTURE_3mr5", creates the "Structure Box" on the page.
+<StructureSection load='3mr5' size='340' side='right'caption='[[3mr5]], [[Resolution|resolution]] 1.80&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'>[[3mr5]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3MR5 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3MR5 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]] 1.8&#8491;</td></tr>
--->
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=TTD:CIS-SYN+CYCLOBUTANE+THYMINE+DIMER'>TTD</scene>, <scene name='pdbligand=XG4:2-DEOXY-5-O-[(R)-HYDROXY{[(R)-HYDROXY(PHOSPHONOOXY)PHOSPHORYL]AMINO}PHOSPHORYL]GUANOSINE'>XG4</scene></td></tr>
-{{STRUCTURE_3mr5|  PDB=3mr5  |  SCENE=  }}
+<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=3mr5 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3mr5 OCA], [https://pdbe.org/3mr5 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3mr5 RCSB], [https://www.ebi.ac.uk/pdbsum/3mr5 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3mr5 ProSAT]</span></td></tr>
+</table>
+== Disease ==
+[https://www.uniprot.org/uniprot/POLH_HUMAN POLH_HUMAN] Defects in POLH are the cause of xeroderma pigmentosum variant type (XPV) [MIM:[https://omim.org/entry/278750 278750]; also designated as XP-V. Xeroderma pigmentosum (XP) is an autosomal recessive disease due to deficient nucleotide excision repair. It is characterized by hypersensitivity of the skin to sunlight, followed by high incidence of skin cancer and frequent neurologic abnormalities. XPV shows normal nucleotide excision repair, but an exaggerated delay in recovery of replicative DNA synthesis. Most XPV patients do not develop clinical symptoms and skin neoplasias until a later age. Clinical manifestations are limited to photo-induced deterioration of the skin and eyes.<ref>PMID:10385124</ref> <ref>PMID:10398605</ref> <ref>PMID:11032022</ref> <ref>PMID:11121129</ref> <ref>PMID:11773631</ref>
+== Function ==
+[https://www.uniprot.org/uniprot/POLH_HUMAN POLH_HUMAN] DNA polymerase specifically involved in DNA repair. Plays an important role in translesion synthesis, where the normal high fidelity DNA polymerases cannot proceed and DNA synthesis stalls. Plays an important role in the repair of UV-induced pyrimidine dimers. Depending on the context, it inserts the correct base, but causes frequent base transitions and transversions. May play a role in hypermutation at immunoglobulin genes. Forms a Schiff base with 5'-deoxyribose phosphate at abasic sites, but does not have lyase activity. Targets POLI to replication foci.<ref>PMID:10385124</ref> <ref>PMID:11743006</ref> <ref>PMID:11376341</ref> <ref>PMID:14630940</ref> <ref>PMID:14734526</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/mr/3mr5_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=3mr5 ConSurf].
+<div style="clear:both"></div>
-===Human DNA polymerase eta - DNA ternary complex with a CPD 1bp upstream of the active site (TT3)===
+==See Also==
+*[[DNA polymerase 3D structures|DNA polymerase 3D structures]]
+== References ==
-<!--
+<references/>
-The line below this paragraph, {{ABSTRACT_PUBMED_20577208}}, adds the Publication Abstract to the page
+__TOC__
-(as it appears on PubMed at http://www.pubmed.gov), where 20577208 is the PubMed ID number.
+</StructureSection>
--->
-{{ABSTRACT_PUBMED_20577208}}
-==About this Structure==
-MR5 is a 3 chains structure with sequences from [http://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3MR5 OCA].
-==Reference==
-<ref group="xtra">PMID:20577208</ref><references group="xtra"/>
-[[Category: DNA-directed DNA polymerase]]
 [[Category: Homo sapiens]]
-[[Category: Biertumpfel, C.]]
+[[Category: Large Structures]]
-[[Category: Gregory, M T.]]
+[[Category: Biertumpfel C]]
-[[Category: Lee, J Y.]]
+[[Category: Gregory MT]]
-[[Category: Ramon-Maiques, S.]]
+[[Category: Lee JY]]
-[[Category: Yang, W.]]
+[[Category: Ramon-Maiques S]]
-[[Category: Zhao, Y.]]
+[[Category: Yang W]]
-[[Category: Cpd]]
+[[Category: Zhao Y]]
-[[Category: Dna damage]]
-[[Category: Pol eta]]
-[[Category: Polymerase]]
-[[Category: Thymine dimer]]
-[[Category: Transferase-dna complex]]
-[[Category: Xeroderma pigmentosum variant]]
-[[Category: Xpv]]
-''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Jul  7 17:45:34 2010''