3ei4: Difference between revisions

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-{{Seed}}
-[[Image:3ei4.jpg|left|200px]]
-<!--
+==Structure of the hsDDB1-hsDDB2 complex==
-The line below this paragraph, containing "STRUCTURE_3ei4", creates the "Structure Box" on the page.
+<StructureSection load='3ei4' size='340' side='right'caption='[[3ei4]], [[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'>[[3ei4]] is a 6 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=3EI4 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3EI4 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='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=3ei4 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3ei4 OCA], [https://pdbe.org/3ei4 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3ei4 RCSB], [https://www.ebi.ac.uk/pdbsum/3ei4 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3ei4 ProSAT]</span></td></tr>
-{{STRUCTURE_3ei4|  PDB=3ei4  |  SCENE=  }}
+</table>
+== Function ==
+[https://www.uniprot.org/uniprot/DDB1_HUMAN DDB1_HUMAN] Required for DNA repair. Binds to DDB2 to form the UV-damaged DNA-binding protein complex (the UV-DDB complex). The UV-DDB complex may recognize UV-induced DNA damage and recruit proteins of the nucleotide excision repair pathway (the NER pathway) to initiate DNA repair. The UV-DDB complex preferentially binds to cyclobutane pyrimidine dimers (CPD), 6-4 photoproducts (6-4 PP), apurinic sites and short mismatches. Also appears to function as a component of numerous distinct DCX (DDB1-CUL4-X-box) E3 ubiquitin-protein ligase complexes which mediate the ubiquitination and subsequent proteasomal degradation of target proteins. The functional specificity of the DCX E3 ubiquitin-protein ligase complex is determined by the variable substrate recognition component recruited by DDB1. DCX(DDB2) (also known as DDB1-CUL4-ROC1, CUL4-DDB-ROC1 and CUL4-DDB-RBX1) may ubiquitinate histone H2A, histone H3 and histone H4 at sites of UV-induced DNA damage. The ubiquitination of histones may facilitate their removal from the nucleosome and promote subsequent DNA repair. DCX(DDB2) also ubiquitinates XPC, which may enhance DNA-binding by XPC and promote NER. DCX(DTL) plays a role in PCNA-dependent polyubiquitination of CDT1 and MDM2-dependent ubiquitination of TP53 in response to radiation-induced DNA damage and during DNA replication. DCX(ERCC8) (the CSA complex) plays a role in transcription-coupled repair (TCR). May also play a role in ubiquitination of CDKN1B/p27kip when associated with CUL4 and SKP2.<ref>PMID:12732143</ref> <ref>PMID:15448697</ref> <ref>PMID:14739464</ref> <ref>PMID:15882621</ref> <ref>PMID:16260596</ref> <ref>PMID:16482215</ref> <ref>PMID:17079684</ref> <ref>PMID:16407242</ref> <ref>PMID:16407252</ref> <ref>PMID:16678110</ref> <ref>PMID:16940174</ref> <ref>PMID:17041588</ref> <ref>PMID:16473935</ref> <ref>PMID:18593899</ref> <ref>PMID:18381890</ref> <ref>PMID:18332868</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/ei/3ei4_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=3ei4 ConSurf].
+<div style="clear:both"></div>
-===Structure of the hsDDB1-hsDDB2 complex===
+==See Also==
+*[[DNA damage-binding protein|DNA damage-binding protein]]
+== References ==
-<!--
+<references/>
-The line below this paragraph, {{ABSTRACT_PUBMED_19109893}}, adds the Publication Abstract to the page
+__TOC__
-(as it appears on PubMed at http://www.pubmed.gov), where 19109893 is the PubMed ID number.
+</StructureSection>
--->
-{{ABSTRACT_PUBMED_19109893}}
-==Disease==
-Known disease associated with this structure: Xeroderma pigmentosum, group E, DDB-negative subtype OMIM:[[http://www.ncbi.nlm.nih.gov/entrez/dispomim.cgi?id=600811 600811]]
-==About this Structure==
-EI4 is a 6 chains structure of 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=3EI4 OCA].
-==Reference==
-<ref group="xtra">PMID:19109893</ref><references group="xtra"/>
 [[Category: Homo sapiens]]
-[[Category: Pavletich, N P.]]
+[[Category: Large Structures]]
-[[Category: Scrima, A.]]
+[[Category: Pavletich NP]]
-[[Category: Thoma, N H.]]
+[[Category: Scrima A]]
-[[Category: Alternative splicing]]
+[[Category: Thoma NH]]
-[[Category: Ddb]]
-[[Category: Disease mutation]]
-[[Category: Dna binding protein]]
-[[Category: Dna damage]]
-[[Category: Dna repair]]
-[[Category: Dna-binding]]
-[[Category: Nucleotide excision repair]]
-[[Category: Nucleus]]
-[[Category: Phosphoprotein]]
-[[Category: Polymorphism]]
-[[Category: Uv-damage]]
-[[Category: Wd repeat]]
-[[Category: Xeroderma pigmentosum]]
-''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Jan 21 10:46:25 2009''