5mgb: Difference between revisions

Latest revision as of 18:42, 1 November 2023

Crystal Structure of Rat Peroxisomal Multifunctional enzyme Type-1 (RPMFE1) Complexed with Acetoacetyl-CoA and NAD

Structural highlights

5mgb is a 2 chain structure with sequence from Rattus norvegicus. This structure supersedes the now removed PDB entry 5aak. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:	X-ray diffraction, Resolution 2.8Å
Ligands:	CAA, GOL, NAD, SO4
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

ECHP_RAT

Publication Abstract from PubMed

Multifunctional enzyme, type-1 (MFE1) is a monomeric enzyme with a 2E-enoyl-CoA hydratase and a 3S-hydroxyacyl-CoA dehydrogenase (HAD) active site. Enzyme kinetic data of rat peroxisomal MFE1 show that the catalytic efficiencies for converting the short-chain substrate 2E-butenoyl-CoA into acetoacetyl-CoA are much lower when compared with those of the homologous monofunctional enzymes. The mode of binding of acetoacetyl-CoA (to the hydratase active site) and the very similar mode of binding of NAD (+) and NADH (to the HAD part) are described and compared with those of their monofunctional counterparts. Structural comparisons suggest that the conformational flexibility of the HAD and hydratase parts of MFE1 are correlated. The possible importance of the conformational flexibility of MFE1 for its biocatalytic properties is discussed. Database: Structural data are available in PDB database under the accession number 5MGB.

Structural enzymology comparisons of multifunctional enzyme, type-1 (MFE1): the flexibility of its dehydrogenase part.,Kasaragod P, Midekessa GB, Sridhar S, Schmitz W, Kiema TR, Hiltunen JK, Wierenga RK FEBS Open Bio. 2017 Nov 6;7(12):1830-1842. doi: 10.1002/2211-5463.12337., eCollection 2017 Dec. PMID:29226071^[1]

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

References

↑ Kasaragod P, Midekessa GB, Sridhar S, Schmitz W, Kiema TR, Hiltunen JK, Wierenga RK. Structural enzymology comparisons of multifunctional enzyme, type-1 (MFE1): the flexibility of its dehydrogenase part. FEBS Open Bio. 2017 Nov 6;7(12):1830-1842. doi: 10.1002/2211-5463.12337., eCollection 2017 Dec. PMID:29226071 doi:https://dx.doi.org/10.1002/2211-5463.12337

Proteopedia Page Contributors and Editors (what is this?)

OCA

[1] Kasaragod P, Midekessa GB, Sridhar S, Schmitz W, Kiema TR, Hiltunen JK, Wierenga RK. Structural enzymology comparisons of multifunctional enzyme, type-1 (MFE1): the flexibility of its dehydrogenase part. FEBS Open Bio. 2017 Nov 6;7(12):1830-1842. doi: 10.1002/2211-5463.12337., eCollection 2017 Dec. PMID:29226071 doi:https://dx.doi.org/10.1002/2211-5463.12337

[1]

@@ Line 1: / Line 1: @@
 ==Crystal Structure of Rat Peroxisomal Multifunctional enzyme Type-1 (RPMFE1) Complexed with Acetoacetyl-CoA and NAD==
-<StructureSection load='5mgb' size='340' side='right' caption='[[5mgb]], [[Resolution|resolution]] 2.80&Aring;' scene=''>
+<StructureSection load='5mgb' size='340' side='right'caption='[[5mgb]], [[Resolution|resolution]] 2.80&Aring;' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[5mgb]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Buffalo_rat Buffalo rat]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=5aak 5aak]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5MGB OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5MGB FirstGlance]. <br>
+<table><tr><td colspan='2'>[[5mgb]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Rattus_norvegicus Rattus norvegicus]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=5aak 5aak]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5MGB OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5MGB FirstGlance]. <br>
-</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CAA:ACETOACETYL-COENZYME+A'>CAA</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=NAD:NICOTINAMIDE-ADENINE-DINUCLEOTIDE'>NAD</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</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]] 2.8&#8491;</td></tr>
-<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">Ehhadh ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10116 Buffalo rat])</td></tr>
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CAA:ACETOACETYL-COENZYME+A'>CAA</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=NAD:NICOTINAMIDE-ADENINE-DINUCLEOTIDE'>NAD</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></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=5mgb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5mgb OCA], [http://pdbe.org/5mgb PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5mgb RCSB], [http://www.ebi.ac.uk/pdbsum/5mgb PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5mgb ProSAT]</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=5mgb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5mgb OCA], [https://pdbe.org/5mgb PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5mgb RCSB], [https://www.ebi.ac.uk/pdbsum/5mgb PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5mgb ProSAT]</span></td></tr>
 </table>
+== Function ==
+[https://www.uniprot.org/uniprot/ECHP_RAT ECHP_RAT]
 <div style="background-color:#fffaf0;">
 == Publication Abstract from PubMed ==
@@ Line 21: / Line 23: @@
 __TOC__
 </StructureSection>
-[[Category: Buffalo rat]]
+[[Category: Large Structures]]
-[[Category: Hiltunen, J K]]
+[[Category: Rattus norvegicus]]
-[[Category: Kasaragod, P]]
+[[Category: Hiltunen JK]]
-[[Category: Kiema, T R]]
+[[Category: Kasaragod P]]
-[[Category: Schmitz, W]]
+[[Category: Kiema T-R]]
-[[Category: Wierenga, R K]]
+[[Category: Schmitz W]]
-[[Category: 3-hydroxyacyl-coa-dehydrogenase]]
+[[Category: Wierenga RK]]
-[[Category: Acetoacetyl-coa]]
-[[Category: Beta-oxidation]]
-[[Category: Crotonase]]
-[[Category: Fatty acid]]
-[[Category: Mfe1]]
-[[Category: Nad+]]
-[[Category: Oxidoreductase]]

5mgb: Difference between revisions

Latest revision as of 18:42, 1 November 2023

Crystal Structure of Rat Peroxisomal Multifunctional enzyme Type-1 (RPMFE1) Complexed with Acetoacetyl-CoA and NAD

Structural highlights

Function

Publication Abstract from PubMed

References

Contents

Proteopedia Page Contributors and Editors (what is this?)

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