2x9p

From Proteopedia

(Difference between revisions)

Current revision

X-ray structure of the substrate-free cytochrome P450 PimD - a polyene macrolide antibiotic pimaricin epoxidase

Structural highlights

2x9p is a 1 chain structure with sequence from Streptomyces natalensis. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:	X-ray diffraction, Resolution 2.1Å
Ligands:	,
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

Q9EW92_9ACTN

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

We present the X-ray structure of PimD, both substrate-free and in complex with 4,5-desepoxypimaricin. PimD is a cytochrome P450 monooxygenase with native epoxidase activity that is critical in the biosynthesis of the polyene macrolide antibiotic pimaricin. Intervention in this secondary metabolic pathway could advance the development of drugs with improved pharmacologic properties. Epoxidation by P450 typically includes formation of a charge-transfer complex between an oxoferryl pi-cation radical species (Compound I) and the olefin pi-bond as the initial intermediate. Catalytic and structural evidence presented here suggest that epoxidation of 4,5-desepoxypimaricin proceeds via a hydroperoxoferric intermediate (Compound 0). The oxygen atom of Compound 0 distal to the heme iron may insert into the double bond of the substrate to make an epoxide ring. Stereoelectronic features of the putative transition state suggest substrate-assisted proton delivery.

Structure of cytochrome P450 PimD suggests epoxidation of the polyene macrolide pimaricin occurs via a hydroperoxoferric intermediate.,Kells PM, Ouellet H, Santos-Aberturas J, Aparicio JF, Podust LM Chem Biol. 2010 Aug 27;17(8):841-51. PMID:20797613^[1]

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

References

↑ Kells PM, Ouellet H, Santos-Aberturas J, Aparicio JF, Podust LM. Structure of cytochrome P450 PimD suggests epoxidation of the polyene macrolide pimaricin occurs via a hydroperoxoferric intermediate. Chem Biol. 2010 Aug 27;17(8):841-51. PMID:20797613 doi:10.1016/j.chembiol.2010.05.026

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/2x9p"

@@ Line 3: / Line 3: @@
 <StructureSection load='2x9p' size='340' side='right'caption='[[2x9p]], [[Resolution|resolution]] 2.10&Aring;' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[2x9p]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/"streptomyces_natalensis"_struyk_et_al._1958 "streptomyces natalensis" struyk et al. 1958]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2X9P OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2X9P FirstGlance]. <br>
+<table><tr><td colspan='2'>[[2x9p]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Streptomyces_natalensis Streptomyces natalensis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2X9P OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2X9P FirstGlance]. <br>
-</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</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]] 2.1&#8491;</td></tr>
-<tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[2xbk|2xbk]]</div></td></tr>
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</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'>[https://proteopedia.org/fgij/fg.htm?mol=2x9p FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2x9p OCA], [https://pdbe.org/2x9p PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2x9p RCSB], [https://www.ebi.ac.uk/pdbsum/2x9p PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2x9p ProSAT]</span></td></tr>
 </table>
+== Function ==
+[https://www.uniprot.org/uniprot/Q9EW92_9ACTN Q9EW92_9ACTN]
 == Evolutionary Conservation ==
 [[Image:Consurf_key_small.gif|200px|right]]
@@ Line 31: / Line 33: @@
 __TOC__
 </StructureSection>
-[[Category: Streptomyces natalensis struyk et al. 1958]]
 [[Category: Large Structures]]
-[[Category: Aparicio, J F]]
+[[Category: Streptomyces natalensis]]
-[[Category: Kells, P M]]
+[[Category: Aparicio JF]]
-[[Category: Ouellet, H]]
+[[Category: Kells PM]]
-[[Category: Podust, L M]]
+[[Category: Ouellet H]]
-[[Category: Santos-Aberturas, J]]
+[[Category: Podust LM]]
-[[Category: Epoxidation]]
+[[Category: Santos-Aberturas J]]
-[[Category: Oxidoreductase]]

2x9p

From Proteopedia

Current revision

X-ray structure of the substrate-free cytochrome P450 PimD - a polyene macrolide antibiotic pimaricin epoxidase

Structural highlights

Function

Evolutionary Conservation

Publication Abstract from PubMed

References

Contents

Proteopedia Page Contributors and Editors (what is this?)

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