OCA at 10:50, 22 November 2023

OCA — Wed, 22 Nov 2023 10:50:51 GMT

←Older revision		Revision as of 10:50, 22 November 2023
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	==Cytochrome P450 107G1 (RapN)==		==Cytochrome P450 107G1 (RapN)==
-	<StructureSection load='6l39' size='340' side='right'caption='[[6l39]]' scene=''>	+	<StructureSection load='6l39' size='340' side='right'caption='[[6l39]], [[Resolution\|resolution]] 2.97Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6L39 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=6L39 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6l39]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Streptomyces_rapamycinicus_NRRL_5491 Streptomyces rapamycinicus NRRL 5491]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6L39 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6L39 FirstGlance]. <br>
-	</td></tr><tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://proteopedia.org/fgij/fg.htm?mol=6l39 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6l39 OCA], [~~http~~://pdbe.org/6l39 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=6l39 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/6l39 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=6l39 ProSAT]</span></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]] 2.97Å</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=PEG:DI(HYDROXYETHYL)ETHER'>PEG</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</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=6l39 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6l39 OCA], [https://pdbe.org/6l39 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6l39 RCSB], [https://www.ebi.ac.uk/pdbsum/6l39 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6l39 ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/A0A0A0NSZ7_STRRN A0A0A0NSZ7_STRRN]
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Rapamycin is a clinically important macrolide agent with immunosuppressant and antiproliferative properties, produced by the actinobacterium, Streptomyces rapamycinicus. Two cytochrome P450 enzymes are involved in the biosynthesis of rapamycin. CYP107G1 and CYP122A2 catalyze the oxidation reactions of C27 and C9 of pre-rapamycin, respectively. To understand the structural and biochemical features of P450 enzymes in rapamycin biosynthesis, the CYP107G1 and CYP122A2 genes were cloned, their recombinant proteins were expressed in Escherichia coli, and the purified enzymes were characterized. Both enzymes displayed low spin states in the absolute spectra of ferric forms, and the titrations with rapamycin induced type I spectral changes with Kd values of 4.4 +/- 0.4 and 3.0 +/- 0.3 muM for CYP107G1 and CYP122A2, respectively. The X-ray crystal structures of CYP107G1 and its co-crystal complex with everolimus, a clinical rapamycin derivative, were determined at resolutions of 2.9 and 3.0 A, respectively. The overall structure of CYP107G1 adopts the canonical scaffold of cytochrome P450 and possesses large substrate pocket. The distal face of the heme group is exposed to solvents to accommodate macrolide access. When the structure of the everolimus-bound CYP107G1 complex (CYP107G1-Eve) was compared to that of the ligand-free CYP107G1 form, no significant conformational change was observed. Hence, CYP107G1 has a relatively rigid structure with versatile loops to accommodate a bulky substrate. The everolimus molecule is bound to the substrate-binding pocket in the shape of a squeezed donut, and its elongated structure is bound perpendicular to a planar heme plane and I-helix.
		+
		+	Structural insights into CYP107G1 from rapamycin-producing Streptomyces rapamycinicus.,Kim V, Lim YR, Lee I, Lee JH, Han S, Pham TV, Kim H, Lee R, Kang LW, Kim D Arch Biochem Biophys. 2020 Oct 15;692:108544. doi: 10.1016/j.abb.2020.108544., Epub 2020 Aug 18. PMID:32822639<ref>PMID:32822639</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 6l39" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Cytochrome P450 3D structures\|Cytochrome P450 3D structures]]
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
		+	[[Category: Streptomyces rapamycinicus NRRL 5491]]
	[[Category: Kang LW]]		[[Category: Kang LW]]
	[[Category: Kim DH]]		[[Category: Kim DH]]

OCA at 09:45, 16 September 2020

OCA — Wed, 16 Sep 2020 09:45:22 GMT

←Older revision		Revision as of 09:45, 16 September 2020
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-	'''Unreleased structure'''

-	~~The entry~~ 6l39 is ~~ON HOLD until Paper Publication~~	+	==Cytochrome P450 107G1 (RapN)==
-		+	<StructureSection load='6l39' size='340' side='right'caption='[[6l39]]' scene=''>
-	~~Authors~~:	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6L39 OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=6L39 FirstGlance]. <br>
-	~~Description~~:	+	</td></tr><tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://proteopedia.org/fgij/fg.htm?mol=6l39 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6l39 OCA], [http://pdbe.org/6l39 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6l39 RCSB], [http://www.ebi.ac.uk/pdbsum/6l39 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6l39 ProSAT]</span></td></tr>
-	[[Category: ~~Unreleased Structures~~]]	+	</table>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Large Structures]]
		+	[[Category: Kang LW]]
		+	[[Category: Kim DH]]
		+	[[Category: Kim VC]]
		+	[[Category: Lee IH]]
		+	[[Category: Lee JH]]
		+	[[Category: Lim YR]]

OCA at 13:27, 22 January 2020

OCA — Wed, 22 Jan 2020 13:27:58 GMT

←Older revision		Revision as of 13:27, 22 January 2020
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 6l39 is ON HOLD	+	The entry 6l39 is ON HOLD until Paper Publication

	Authors:		Authors:

OCA: Protected "6l39" [edit=sysop:move=sysop]

OCA — Wed, 16 Oct 2019 04:20:05 GMT

Protected "6l39" [edit=sysop:move=sysop]

←Older revision

Revision as of 04:20, 16 October 2019

OCA: New page: '''Unreleased structure''' The entry 6l39 is ON HOLD Authors: Description: Category: Unreleased Structures

OCA — Wed, 16 Oct 2019 04:20:03 GMT

New page: '''Unreleased structure''' The entry 6l39 is ON HOLD Authors: Description: Category: Unreleased Structures

New page

'''Unreleased structure'''

The entry 6l39 is ON HOLD

Authors:

Description:
[[Category: Unreleased Structures]]

6l39 - Revision history

OCA at 10:50, 22 November 2023

OCA at 09:45, 16 September 2020

OCA at 13:27, 22 January 2020

OCA: Protected "6l39" [edit=sysop:move=sysop]

OCA: New page: '''Unreleased structure''' The entry 6l39 is ON HOLD Authors: Description: Category: Unreleased Structures