5zw8 - Revision history

OCA at 09:09, 22 November 2023

OCA — Wed, 22 Nov 2023 09:09:31 GMT

←Older revision		Revision as of 09:09, 22 November 2023
Line 3:		Line 3:
	<StructureSection load='5zw8' size='340' side='right'caption='[[5zw8]], [[Resolution\|resolution]] 1.69Å' scene=''>		<StructureSection load='5zw8' size='340' side='right'caption='[[5zw8]], [[Resolution\|resolution]] 1.69Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5zw8]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Sers3 Sers3~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5ZW8 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=5ZW8 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5zw8]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Serratia_sp._ATCC_39006 Serratia sp. ATCC 39006]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5ZW8 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5ZW8 FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=FAD:FLAVIN-ADENINE+DINUCLEOTIDE'>FAD</scene>, <scene name='pdbligand=MLA:MALONIC+ACID'>MLA</scene>, <scene name='pdbligand=O4B:1,4,7,10,13,16-HEXAOXACYCLOOCTADECANE'>O4B</scene>, <scene name='pdbligand=PRO:PROLINE'>PRO</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]] 1.689Å</td></tr>
-	~~<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5zw0\|5zw0]], [[5zw2\|5zw2]], [[5zw7\|5zw7]]</td></tr>~~	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=FAD:FLAVIN-ADENINE+DINUCLEOTIDE'>FAD</scene>, <scene name='pdbligand=MLA:MALONIC+ACID'>MLA</scene>, <scene name='pdbligand=O4B:1,4,7,10,13,16-HEXAOXACYCLOOCTADECANE'>O4B</scene>, <scene name='pdbligand=PRO:PROLINE'>PRO</scene></td></tr>
-	~~<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">pigA ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=104623 SERS3])</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=5zw8 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5zw8 OCA], [https://pdbe.org/5zw8 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5zw8 RCSB], [https://www.ebi.ac.uk/pdbsum/5zw8 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5zw8 ProSAT]</span></td></tr>
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/L-prolyl-[peptidyl-carrier_protein]_dehydrogenase L-prolyl-[peptidyl-carrier protein] dehydrogenase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.3.8.14 1.3.8.14] </span></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=5zw8 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5zw8 OCA], [~~http~~://pdbe.org/5zw8 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5zw8 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5zw8 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5zw8 ProSAT]</span></td></tr>	+
	</table>		</table>
	== Function ==		== Function ==
-	[~~[http~~://www.uniprot.org/uniprot/PIGA_SERS3 PIGA_SERS3]] Involved in the biosynthesis of 4-methoxy-2,2'-bipyrrole-5-carbaldehyde (MBC), one of the terminal products involved in the biosynthesis of the red antibiotic prodigiosin (Pig). Catalyzes the desaturation of the L-prolyl-[PigG] to yield 1H-pyrrole-2-carbonyl-[PigG].<ref>PMID:15853884</ref> <ref>PMID:17002325</ref>	+	[https://www.uniprot.org/uniprot/PIGA_SERS3 PIGA_SERS3] Involved in the biosynthesis of 4-methoxy-2,2'-bipyrrole-5-carbaldehyde (MBC), one of the terminal products involved in the biosynthesis of the red antibiotic prodigiosin (Pig). Catalyzes the desaturation of the L-prolyl-[PigG] to yield 1H-pyrrole-2-carbonyl-[PigG].<ref>PMID:15853884</ref> <ref>PMID:17002325</ref>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 26:		Line 24:
	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Sers3~~]]	+	[[Category: Serratia sp. ATCC 39006]]
-	[[Category: Ko, T P]]	+	[[Category: Ko T-P]]
-	[[Category: Lee, C C]]	+	[[Category: Lee C-C]]
-	[[Category: Wang~~, A H.J]]~~	+	[[Category: Wang AHJ]]
-	~~[[Category: Acyl-coa oxidase]]~~	+
-	~~[[Category: Biosynthetic protein]]~~	+
-	~~[[Category: Fad]]~~	+
-	~~[[Category: Pyrrole]]~~	+
-	~~[[Category: Red pigment]]~~	+
-	~~[[Category: Tetramer~~]]	+

OCA at 21:24, 28 October 2020

OCA — Wed, 28 Oct 2020 21:24:39 GMT

←Older revision		Revision as of 21:24, 28 October 2020
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	==PigA with FAD and proline==		==PigA with FAD and proline==
-	<StructureSection load='5zw8' size='340' side='right' caption='[[5zw8]], [[Resolution\|resolution]] 1.69Å' scene=''>	+	<StructureSection load='5zw8' size='340' side='right'caption='[[5zw8]], [[Resolution\|resolution]] 1.69Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5zw8]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5ZW8 OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5ZW8 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5zw8]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Sers3 Sers3]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5ZW8 OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=5ZW8 FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=FAD:FLAVIN-ADENINE+DINUCLEOTIDE'>FAD</scene>, <scene name='pdbligand=MLA:MALONIC+ACID'>MLA</scene>, <scene name='pdbligand=O4B:1,4,7,10,13,16-HEXAOXACYCLOOCTADECANE'>O4B</scene>, <scene name='pdbligand=PRO:PROLINE'>PRO</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=FAD:FLAVIN-ADENINE+DINUCLEOTIDE'>FAD</scene>, <scene name='pdbligand=MLA:MALONIC+ACID'>MLA</scene>, <scene name='pdbligand=O4B:1,4,7,10,13,16-HEXAOXACYCLOOCTADECANE'>O4B</scene>, <scene name='pdbligand=PRO:PROLINE'>PRO</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5zw0\|5zw0]], [[5zw2\|5zw2]], [[5zw7\|5zw7]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5zw0\|5zw0]], [[5zw2\|5zw2]], [[5zw7\|5zw7]]</td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">pigA ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=104623 SERS3])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/L-prolyl-[peptidyl-carrier_protein]_dehydrogenase L-prolyl-[peptidyl-carrier protein] dehydrogenase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.3.8.14 1.3.8.14] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/L-prolyl-[peptidyl-carrier_protein]_dehydrogenase L-prolyl-[peptidyl-carrier protein] dehydrogenase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.3.8.14 1.3.8.14] </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=5zw8 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5zw8 OCA], [http://pdbe.org/5zw8 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5zw8 RCSB], [http://www.ebi.ac.uk/pdbsum/5zw8 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5zw8 ProSAT]</span></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=5zw8 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5zw8 OCA], [http://pdbe.org/5zw8 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5zw8 RCSB], [http://www.ebi.ac.uk/pdbsum/5zw8 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5zw8 ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 24:		Line 25:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Large Structures]]
		+	[[Category: Sers3]]
	[[Category: Ko, T P]]		[[Category: Ko, T P]]
	[[Category: Lee, C C]]		[[Category: Lee, C C]]

OCA at 10:03, 5 September 2018

OCA — Wed, 05 Sep 2018 10:03:01 GMT

←Older revision		Revision as of 10:03, 5 September 2018
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 5zw8 is ~~ON HOLD~~ ~~until Paper~~ Publication	+	==PigA with FAD and proline==
		+	<StructureSection load='5zw8' size='340' side='right' caption='[[5zw8]], [[Resolution\|resolution]] 1.69Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[5zw8]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5ZW8 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5ZW8 FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=FAD:FLAVIN-ADENINE+DINUCLEOTIDE'>FAD</scene>, <scene name='pdbligand=MLA:MALONIC+ACID'>MLA</scene>, <scene name='pdbligand=O4B:1,4,7,10,13,16-HEXAOXACYCLOOCTADECANE'>O4B</scene>, <scene name='pdbligand=PRO:PROLINE'>PRO</scene></td></tr>
		+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5zw0\|5zw0]], [[5zw2\|5zw2]], [[5zw7\|5zw7]]</td></tr>
		+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/L-prolyl-[peptidyl-carrier_protein]_dehydrogenase L-prolyl-[peptidyl-carrier protein] dehydrogenase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.3.8.14 1.3.8.14] </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=5zw8 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5zw8 OCA], [http://pdbe.org/5zw8 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5zw8 RCSB], [http://www.ebi.ac.uk/pdbsum/5zw8 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5zw8 ProSAT]</span></td></tr>
		+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/PIGA_SERS3 PIGA_SERS3]] Involved in the biosynthesis of 4-methoxy-2,2'-bipyrrole-5-carbaldehyde (MBC), one of the terminal products involved in the biosynthesis of the red antibiotic prodigiosin (Pig). Catalyzes the desaturation of the L-prolyl-[PigG] to yield 1H-pyrrole-2-carbonyl-[PigG].<ref>PMID:15853884</ref> <ref>PMID:17002325</ref>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Prodigiosin is an intensely red pigment comprising three pyrroles. The biosynthetic pathway includes a two-step proline oxidation catalyzed by PigA, using FAD as its cofactor. Here the enzyme is crystallized in apo-form and in complex with FAD and proline. As an acyl-CoA dehydrogenase (ACAD) family member, the protein folds into a beta-sheet flanked by two alpha-helical domains. PigA forms a tetramer, consistent with analytical ultracentrifugation results. FAD binds to PigA in a similar way to that in the other ACAD-family enzymes. The variable conformations of loop beta4-beta5 and helix alphaG correlate well with the structural flexibility required for substrate entrance to the Re side of FAD. Modeling with PigG, the acyl carrier protein, suggests a reasonable mode of interaction with PigA. The structure helps explain the proline oxidation mechanism, in which Glu244 plays a central role by abstracting the substrate protons. It also reveals a plausible pocket for oxygen binding to the Si side of FAD.

-	~~Authors: Lee~~, C.-C., Ko, ~~T.-P.~~, ~~Wang~~, A.H.J.	+	Crystal structure of PigA, a prolyl thioester-oxidizing enzyme in prodigiosin biosynthesis.,Lee CC, Ko TP, Chen CT, Chan YT, Lo SY, Chang JY, Chen YW, Chung TF, Hsieh HJ, Hsiao CD, Wang AH Chembiochem. 2018 Aug 10. doi: 10.1002/cbic.201800409. PMID:30095206<ref>PMID:30095206</ref>

-	~~Description~~: ~~PigA with FAD and proline~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	[[Category: ~~Unreleased Structures~~]]	+	</div>
-	[[Category: Wang, A.H.J]]	+	<div class="pdbe-citations 5zw8" style="background-color:#fffaf0;"></div>
-	[[Category: ~~Ko, T.~~-P]]	+	== References ==
-	[[Category: ~~Lee, C.-C~~]]	+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Ko, T P]]
		+	[[Category: Lee, C C]]
		+	[[Category: Wang, A H.J]]
		+	[[Category: Acyl-coa oxidase]]
		+	[[Category: Biosynthetic protein]]
		+	[[Category: Fad]]
		+	[[Category: Pyrrole]]
		+	[[Category: Red pigment]]
		+	[[Category: Tetramer]]

OCA at 04:09, 6 June 2018

OCA — Wed, 06 Jun 2018 04:09:22 GMT

←Older revision		Revision as of 04:09, 6 June 2018
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 5zw8 is ON HOLD	+	The entry 5zw8 is ON HOLD until Paper Publication

	Authors: Lee, C.-C., Ko, T.-P., Wang, A.H.J.		Authors: Lee, C.-C., Ko, T.-P., Wang, A.H.J.
Line 7:		Line 7:
	Description: PigA with FAD and proline		Description: PigA with FAD and proline
	[[Category: Unreleased Structures]]		[[Category: Unreleased Structures]]
		+	[[Category: Wang, A.H.J]]
	[[Category: Ko, T.-P]]		[[Category: Ko, T.-P]]
	[[Category: Lee, C.-C]]		[[Category: Lee, C.-C]]
-	[[Category: Wang, A.H.J]]

OCA: Protected "5zw8" [edit=sysop:move=sysop]

OCA — Wed, 23 May 2018 05:51:49 GMT

Protected "5zw8" [edit=sysop:move=sysop]

←Older revision

Revision as of 05:51, 23 May 2018

OCA: New page: '''Unreleased structure''' The entry 5zw8 is ON HOLD Authors: Lee, C.-C., Ko, T.-P., Wang, A.H.J. Description: PigA with FAD and proline Category: Unreleased Structures [[Category:...

OCA — Wed, 23 May 2018 05:51:48 GMT

New page: '''Unreleased structure''' The entry 5zw8 is ON HOLD Authors: Lee, C.-C., Ko, T.-P., Wang, A.H.J. Description: PigA with FAD and proline Category: Unreleased Structures [[Category:...

New page

'''Unreleased structure'''

The entry 5zw8 is ON HOLD

Authors: Lee, C.-C., Ko, T.-P., Wang, A.H.J.

Description: PigA with FAD and proline
[[Category: Unreleased Structures]]
[[Category: Ko, T.-P]]
[[Category: Lee, C.-C]]
[[Category: Wang, A.H.J]]