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1ef8

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Revision as of 10:06, 10 September 2015

CRYSTAL STRUCTURE OF METHYLMALONYL COA DECARBOXYLASE

Structural highlights

1ef8 is a 3 chain structure with sequence from Escherichia coli. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Ligands:
Related:	1ef9
Activity:	Methylmalonyl-CoA decarboxylase, with EC number 4.1.1.41
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum

Function

[SCPB_ECOLI] Catalyzes the decarboxylation of methylmalonyl-CoA to propionyl-CoA. Could be part of a pathway that converts succinate to propionate.^[1]

Evolutionary Conservation

Check, as determined by ConSurfDB. You may read the explanation of the method and the full data available from ConSurf.

Publication Abstract from PubMed

The molecular structure of methylmalonyl CoA decarboxylase (MMCD), a newly defined member of the crotonase superfamily encoded by the Escherichia coli genome, has been solved by X-ray crystallographic analyses to a resolution of 1.85 A for the unliganded form and to a resolution of 2.7 A for a complex with an inert thioether analogue of methylmalonyl CoA. Like two other structurally characterized members of the crotonase superfamily (crotonase and dienoyl CoA isomerase), MMCD is a hexamer (dimer of trimers) with each polypeptide chain composed of two structural motifs. The larger N-terminal domain contains the active site while the smaller C-terminal motif is alpha-helical and involved primarily in trimerization. Unlike the other members of the crotonase superfamily, however, the C-terminal motif is folded back onto the N-terminal domain such that each active site is wholly contained within a single subunit. The carboxylate group of the thioether analogue of methylmalonyl CoA is hydrogen bonded to the peptidic NH group of Gly 110 and the imidazole ring of His 66. From modeling studies, it appears that Tyr 140 is positioned within the active site to participate in the decarboxylation reaction by orienting the carboxylate group of methylmalonyl CoA so that it is orthogonal to the plane of the thioester carbonyl group. Surprisingly, while the active site of MMCD contains Glu 113, which is homologous to the general acid/base Glu 144 in the active site of crotonase, its carboxylate side chain is hydrogen bonded to Arg 86, suggesting that it is not directly involved in catalysis. The new constellation of putative functional groups observed in the active site of MMCD underscores the diversity of function in this superfamily.

New reactions in the crotonase superfamily: structure of methylmalonyl CoA decarboxylase from Escherichia coli.,Benning MM, Haller T, Gerlt JA, Holden HM Biochemistry. 2000 Apr 25;39(16):4630-9. PMID:10769118^[2]

From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.

References

↑ Haller T, Buckel T, Retey J, Gerlt JA. Discovering new enzymes and metabolic pathways: conversion of succinate to propionate by Escherichia coli. Biochemistry. 2000 Apr 25;39(16):4622-9. PMID:10769117
↑ Benning MM, Haller T, Gerlt JA, Holden HM. New reactions in the crotonase superfamily: structure of methylmalonyl CoA decarboxylase from Escherichia coli. Biochemistry. 2000 Apr 25;39(16):4630-9. PMID:10769118

1 Structural highlights
2 Function
3 Evolutionary Conservation
4 Publication Abstract from PubMed
5 References

Proteopedia Page Contributors and Editors (what is this?)

OCA

Retrieved from "http://52.214.119.220/wiki/index.php/1ef8"

@@ Line 6: / Line 6: @@
 <tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[1ef9|1ef9]]</td></tr>
 <tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Methylmalonyl-CoA_decarboxylase Methylmalonyl-CoA decarboxylase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=4.1.1.41 4.1.1.41] </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=1ef8 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1ef8 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1ef8 RCSB], [http://www.ebi.ac.uk/pdbsum/1ef8 PDBsum]</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=1ef8 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1ef8 OCA], [http://pdbe.org/1ef8 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1ef8 RCSB], [http://www.ebi.ac.uk/pdbsum/1ef8 PDBsum]</span></td></tr>
 </table>
 == Function ==
-[[http://www.uniprot.org/uniprot/MMCD_ECOLI MMCD_ECOLI]] Catalyzes the decarboxylation of methylmalonyl-CoA to propionyl-CoA. Could be part of a pathway that converts succinate to propionate.<ref>PMID:10769117</ref>
+[[http://www.uniprot.org/uniprot/SCPB_ECOLI SCPB_ECOLI]] Catalyzes the decarboxylation of methylmalonyl-CoA to propionyl-CoA. Could be part of a pathway that converts succinate to propionate.<ref>PMID:10769117</ref>
 == Evolutionary Conservation ==
 [[Image:Consurf_key_small.gif|200px|right]]
@@ Line 28: / Line 28: @@
 From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
 </div>
+<div class="pdbe-citations 1ef8" style="background-color:#fffaf0;"></div>
 == References ==
 <references/>

1ef8

From Proteopedia

Revision as of 10:06, 10 September 2015

CRYSTAL STRUCTURE OF METHYLMALONYL COA DECARBOXYLASE

Structural highlights

Function

Evolutionary Conservation

Publication Abstract from PubMed

References

Contents

Proteopedia Page Contributors and Editors (what is this?)

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