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| | <StructureSection load='5c4r' size='340' side='right'caption='[[5c4r]], [[Resolution|resolution]] 3.17Å' scene=''> | | <StructureSection load='5c4r' size='340' side='right'caption='[[5c4r]], [[Resolution|resolution]] 3.17Å' scene=''> |
| | == Structural highlights == | | == Structural highlights == |
| - | <table><tr><td colspan='2'>[[5c4r]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5C4R OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5C4R FirstGlance]. <br> | + | <table><tr><td colspan='2'>[[5c4r]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Rhodobacter_capsulatus_SB_1003 Rhodobacter capsulatus SB 1003]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5C4R OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5C4R FirstGlance]. <br> |
| - | </td></tr><tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Precorrin-6A_reductase Precorrin-6A reductase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.3.1.54 1.3.1.54] </span></td></tr> | + | </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=5c4r FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5c4r OCA], [https://pdbe.org/5c4r PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5c4r RCSB], [https://www.ebi.ac.uk/pdbsum/5c4r PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5c4r 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=5c4r FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5c4r OCA], [http://pdbe.org/5c4r PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5c4r RCSB], [http://www.ebi.ac.uk/pdbsum/5c4r PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5c4r ProSAT]</span></td></tr> | + | |
| | </table> | | </table> |
| | == Function == | | == Function == |
| - | [[http://www.uniprot.org/uniprot/COBK_RHOCB COBK_RHOCB]] Catalyzes the reduction of the macrocycle of precorrin-6X into precorrin-6Y. | + | [https://www.uniprot.org/uniprot/COBK_RHOCB COBK_RHOCB] Catalyzes the reduction of the macrocycle of precorrin-6X into precorrin-6Y. |
| | <div style="background-color:#fffaf0;"> | | <div style="background-color:#fffaf0;"> |
| | == Publication Abstract from PubMed == | | == Publication Abstract from PubMed == |
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| | </StructureSection> | | </StructureSection> |
| | [[Category: Large Structures]] | | [[Category: Large Structures]] |
| - | [[Category: Precorrin-6A reductase]] | + | [[Category: Rhodobacter capsulatus SB 1003]] |
| - | [[Category: Gu, S]] | + | [[Category: Gu S]] |
| - | [[Category: Pickersgill, R W]] | + | [[Category: Pickersgill RW]] |
| - | [[Category: Cobk precorrin-6a reductase]]
| + | |
| - | [[Category: Nadp]]
| + | |
| - | [[Category: Oxidoreductase]]
| + | |
| - | [[Category: Precorrin]]
| + | |
| - | [[Category: Rossmann fold]]
| + | |
| Structural highlights
Function
COBK_RHOCB Catalyzes the reduction of the macrocycle of precorrin-6X into precorrin-6Y.
Publication Abstract from PubMed
CobK catalyzes the essential reduction of the precorrin ring in the cobalamin biosynthetic pathway. The crystal structure of CobK reveals that the enzyme, despite not having the signature sequence, comprises two Rossmann fold domains which bind coenzyme and substrate respectively. The two parallel beta-sheets have swapped their last beta-strands giving a novel sheet topology which is an interesting variation on the Rossmann-fold. The trapped ternary complex with coenzyme and product reveals five conserved basic residues that bind the carboxylates of the tetrapyrrole tightly anchoring the product. A loop, disordered in both the apoenzyme and holoenzyme structures, closes around the product further tightening binding. The structure is consistent with a mechanism involving protonation of C18 and pro-R hydride transfer from NADPH to C19 of precorrin-6A and reveals the interactions responsible for the specificity of CobK. The almost complete burial of the reduced precorrin product suggests a remarkable form of metabolite channeling where the next enzyme in the biosynthetic pathway triggers product release.
Crystal structure of CobK reveals strand-swapping between Rossmann-fold domains and molecular basis of the reduced precorrin product trap.,Gu S, Sushko O, Deery E, Warren MJ, Pickersgill RW Sci Rep. 2015 Nov 30;5:16943. doi: 10.1038/srep16943. PMID:26616290[1]
From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.
References
- ↑ Gu S, Sushko O, Deery E, Warren MJ, Pickersgill RW. Crystal structure of CobK reveals strand-swapping between Rossmann-fold domains and molecular basis of the reduced precorrin product trap. Sci Rep. 2015 Nov 30;5:16943. doi: 10.1038/srep16943. PMID:26616290 doi:http://dx.doi.org/10.1038/srep16943
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