5ndc: Difference between revisions

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 ==Structure of ba3-type cytochrome c oxidase from Thermus thermophilus by serial femtosecond crystallography==
-<StructureSection load='5ndc' size='340' side='right' caption='[[5ndc]], [[Resolution|resolution]] 2.30&Aring;' scene=''>
+<StructureSection load='5ndc' size='340' side='right'caption='[[5ndc]], [[Resolution|resolution]] 2.30&Aring;' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[5ndc]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/"flavobacterium_thermophilum"_yoshida_and_oshima_1971 "flavobacterium thermophilum" yoshida and oshima 1971]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5NDC OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5NDC FirstGlance]. <br>
+<table><tr><td colspan='2'>[[5ndc]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/Thermus_thermophilus Thermus thermophilus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5NDC OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5NDC FirstGlance]. <br>
-</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CU:COPPER+(II)+ION'>CU</scene>, <scene name='pdbligand=CUA:DINUCLEAR+COPPER+ION'>CUA</scene>, <scene name='pdbligand=HAS:HEME-AS'>HAS</scene>, <scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene>, <scene name='pdbligand=OLC:(2R)-2,3-DIHYDROXYPROPYL+(9Z)-OCTADEC-9-ENOATE'>OLC</scene></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]] 2.3&#8491;</td></tr>
-<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">cbaA, TTHA1135 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=274 "Flavobacterium thermophilum" Yoshida and Oshima 1971]), cbaB, ctaC, TTHA1134 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=274 "Flavobacterium thermophilum" Yoshida and Oshima 1971]), HGMM_F04D06C07, TTMY_0198 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=274 "Flavobacterium thermophilum" Yoshida and Oshima 1971])</td></tr>
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CU:COPPER+(II)+ION'>CU</scene>, <scene name='pdbligand=CUA:DINUCLEAR+COPPER+ION'>CUA</scene>, <scene name='pdbligand=HAS:HEME-AS'>HAS</scene>, <scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene>, <scene name='pdbligand=OLC:(2R)-2,3-DIHYDROXYPROPYL+(9Z)-OCTADEC-9-ENOATE'>OLC</scene></td></tr>
-<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Cytochrome-c_oxidase Cytochrome-c oxidase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.9.3.1 1.9.3.1] </span></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=5ndc FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5ndc OCA], [https://pdbe.org/5ndc PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5ndc RCSB], [https://www.ebi.ac.uk/pdbsum/5ndc PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5ndc ProSAT]</span></td></tr>
-<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5ndc FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5ndc OCA], [http://pdbe.org/5ndc PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5ndc RCSB], [http://www.ebi.ac.uk/pdbsum/5ndc PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5ndc ProSAT]</span></td></tr>
 </table>
 == Function ==
-[[http://www.uniprot.org/uniprot/COX2_THET8 COX2_THET8]] Subunits I and II form the functional core of the enzyme complex. Electrons originating in cytochrome c are transferred via heme a and Cu(A) to the binuclear center formed by heme a3 and Cu(B).
+[https://www.uniprot.org/uniprot/COX1_THET8 COX1_THET8]
 <div style="background-color:#fffaf0;">
 == Publication Abstract from PubMed ==
@@ Line 22: / Line 21: @@
 ==See Also==
-*[[Cytochrome c oxidase|Cytochrome c oxidase]]
+*[[Cytochrome c oxidase 3D structures|Cytochrome c oxidase 3D structures]]
 == References ==
 <references/>
 __TOC__
 </StructureSection>
-[[Category: Flavobacterium thermophilum yoshida and oshima 1971]]
+[[Category: Large Structures]]
-[[Category: Cytochrome-c oxidase]]
+[[Category: Thermus thermophilus]]
-[[Category: Andersson, R]]
+[[Category: Andersson R]]
-[[Category: Bath, P]]
+[[Category: Bath P]]
-[[Category: Bosman, E]]
+[[Category: Bosman E]]
-[[Category: Branden, G]]
+[[Category: Branden G]]
-[[Category: Dods, R]]
+[[Category: Dods R]]
-[[Category: Dunevall, E]]
+[[Category: Dunevall E]]
-[[Category: Iwata, S]]
+[[Category: Iwata S]]
-[[Category: Joti, Y]]
+[[Category: Joti Y]]
-[[Category: Nakane, T]]
+[[Category: Nakane T]]
-[[Category: Nango, E]]
+[[Category: Nango E]]
-[[Category: Neutze, R]]
+[[Category: Neutze R]]
-[[Category: Nureki, O]]
+[[Category: Nureki O]]
-[[Category: Safari, C]]
+[[Category: Safari C]]
-[[Category: Tanaka, R]]
+[[Category: Tanaka R]]
-[[Category: Tono, K]]
+[[Category: Tono K]]
-[[Category: Cytochrome c oxidase]]
-[[Category: Oxidoreductase]]
-[[Category: Respiratory chain enzyme]]
-[[Category: Sfx]]