4ppm - Revision history

OCA at 07:23, 8 February 2023

2023-02-08T07:23:56Z

←Older revision		Revision as of 07:23, 8 February 2023
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	<StructureSection load='4ppm' size='340' side='right'caption='[[4ppm]], [[Resolution\|resolution]] 2.30Å' scene=''>		<StructureSection load='4ppm' size='340' side='right'caption='[[4ppm]], [[Resolution\|resolution]] 2.30Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4ppm]] is a 2 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Sersf Sersf~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4PPM OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=4PPM FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4ppm]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Serratia_sp._FS14 Serratia sp. FS14]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4PPM OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4PPM FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=PLP:PYRIDOXAL-5-PHOSPHATE'>PLP</scene>~~</td></tr>~~	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=PLP:PYRIDOXAL-5-PHOSPHATE'>PLP</scene></td></tr>
-	~~<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">L085_23050 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1327989 SERSF])~~</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=4ppm FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4ppm OCA], [https://pdbe.org/4ppm PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4ppm RCSB], [https://www.ebi.ac.uk/pdbsum/4ppm PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4ppm ProSAT]</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=4ppm FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4ppm OCA], [~~http~~://pdbe.org/4ppm PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=4ppm RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/4ppm PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=4ppm ProSAT]</span></td></tr>	+
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/PIGE_SERSF PIGE_SERSF] Involved in the biosynthesis of 2-methyl-3-n-amyl-pyrrole (MAP), one of the terminal products involved in the biosynthesis of the red antibiotic prodigiosin (Pig). Catalyzes the transamination to the aldehyde group of 3-acetyloctanal, resulting in an aminoketone, which spontaneously cyclizes to yield the dihydro form of MAP (H2MAP).<ref>PMID:24704447</ref>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
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	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Sersf~~]]	+	[[Category: Serratia sp. FS14]]
-	[[Category: Lou~~, X D~~]]	+	[[Category: Lou XD]]
-	[[Category: Ran~~, T T~~]]	+	[[Category: Ran TT]]
-	[[Category: Wang~~, W W~~]]	+	[[Category: Wang WW]]
-	[[Category: Xu~~, D Q]]~~	+	[[Category: Xu DQ]]
-	~~[[Category: Transaminase]]~~	+
-	~~[[Category: Transferase~~]]	+

OCA at 08:17, 17 April 2019

2019-04-17T08:17:42Z

←Older revision		Revision as of 08:17, 17 April 2019
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	==Crystal structure of PigE: a transaminase involved in the biosynthesis of 2-methyl-3-n-amyl-pyrrole (MAP) from Serratia sp. FS14==		==Crystal structure of PigE: a transaminase involved in the biosynthesis of 2-methyl-3-n-amyl-pyrrole (MAP) from Serratia sp. FS14==
-	<StructureSection load='4ppm' size='340' side='right' caption='[[4ppm]], [[Resolution\|resolution]] 2.30Å' scene=''>	+	<StructureSection load='4ppm' size='340' side='right'caption='[[4ppm]], [[Resolution\|resolution]] 2.30Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4ppm]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4PPM OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4PPM FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4ppm]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Sersf Sersf]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4PPM OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4PPM FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=PLP:PYRIDOXAL-5-PHOSPHATE'>PLP</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=PLP:PYRIDOXAL-5-PHOSPHATE'>PLP</scene></td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">L085_23050 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1327989 SERSF])</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=4ppm FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4ppm OCA], [http://pdbe.org/4ppm PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4ppm RCSB], [http://www.ebi.ac.uk/pdbsum/4ppm PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4ppm ProSAT]</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=4ppm FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4ppm OCA], [http://pdbe.org/4ppm PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4ppm RCSB], [http://www.ebi.ac.uk/pdbsum/4ppm PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4ppm ProSAT]</span></td></tr>
	</table>		</table>
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Large Structures]]
		+	[[Category: Sersf]]
	[[Category: Lou, X D]]		[[Category: Lou, X D]]
	[[Category: Ran, T T]]		[[Category: Ran, T T]]

OCA at 09:45, 11 August 2016

2016-08-11T09:45:30Z

←Older revision		Revision as of 09:45, 11 August 2016
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		+
	==Crystal structure of PigE: a transaminase involved in the biosynthesis of 2-methyl-3-n-amyl-pyrrole (MAP) from Serratia sp. FS14==		==Crystal structure of PigE: a transaminase involved in the biosynthesis of 2-methyl-3-n-amyl-pyrrole (MAP) from Serratia sp. FS14==
	<StructureSection load='4ppm' size='340' side='right' caption='[[4ppm]], [[Resolution\|resolution]] 2.30Å' scene=''>		<StructureSection load='4ppm' size='340' side='right' caption='[[4ppm]], [[Resolution\|resolution]] 2.30Å' scene=''>
Line 4:		Line 5:
	<table><tr><td colspan='2'>[[4ppm]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4PPM OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4PPM FirstGlance]. <br>		<table><tr><td colspan='2'>[[4ppm]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4PPM OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4PPM FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=PLP:PYRIDOXAL-5-PHOSPHATE'>PLP</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=PLP:PYRIDOXAL-5-PHOSPHATE'>PLP</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=4ppm FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4ppm OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4ppm RCSB], [http://www.ebi.ac.uk/pdbsum/4ppm 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=4ppm FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4ppm OCA], [http://pdbe.org/4ppm PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4ppm RCSB], [http://www.ebi.ac.uk/pdbsum/4ppm PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4ppm ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
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	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>		From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
	</div>		</div>
		+	<div class="pdbe-citations 4ppm" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>

OCA at 13:34, 14 January 2015

2015-01-14T13:34:11Z

←Older revision		Revision as of 13:34, 14 January 2015
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-	'''~~Unreleased~~ structure'''	+	==Crystal structure of PigE: a transaminase involved in the biosynthesis of 2-methyl-3-n-amyl-pyrrole (MAP) from Serratia sp. FS14==
		+	<StructureSection load='4ppm' size='340' side='right' caption='[[4ppm]], [[Resolution\|resolution]] 2.30Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[4ppm]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4PPM OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4PPM FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=PLP:PYRIDOXAL-5-PHOSPHATE'>PLP</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=4ppm FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4ppm OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4ppm RCSB], [http://www.ebi.ac.uk/pdbsum/4ppm PDBsum]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Prodigiosin, a tripyrrole red pigment synthesized by Serratia and some other microbes through a bifurcated biosynthesis pathway, MBC (4-methoxy-2,2'-bipyrrole-5-carbaldehyde) and MAP (2-methyl-3-n-amyl-pyrrole) are synthesized separately and then condensed by PigC to form prodigiosin. MAP is synthesized sequentially by PigD, PigE and PigB. PigE catalyzes the transamination of an amino group to the aldehyde group of 3-acetyloctanal, resulting in an aminoketone, which spontaneously cyclizes to form H2MAP. Here we report the crystal structure of the catalytic domain of PigE which involved in the biosynthesis of prodigiosin precursor MAP for the first time to a resolution of 2.3A with a homodimer in the asymmetric unit. The monomer of PigE catalytic domain is composed of three domains with PLP as cofactor: a small N-terminal domain connecting the catalytic domain with the front part of PigE, a large PLP-binding domain and a C-terminal domain. The residues from both monomers build the PLP binding site at the interface of the dimer which resembles the other PLP-dependent enzymes. Structural comparison of PigE with Thermus thermophilus AcOAT showed a higher hydrophobic and smaller active site of PigE, these differences may be the reason for substrate specificity.

-	~~The entry 4ppm is ON HOLD until Paper Publication~~	+	Crystal structure of the catalytic domain of PigE: a transaminase involved in the biosynthesis of 2-methyl-3-n-amyl-pyrrole (MAP) from Serratia sp. FS14.,Lou X, Ran T, Han N, Gao Y, He J, Tang L, Xu D, Wang W Biochem Biophys Res Commun. 2014 Apr 25;447(1):178-83. doi:, 10.1016/j.bbrc.2014.03.125. Epub 2014 Apr 2. PMID:24704447<ref>PMID:24704447</ref>

-	~~Authors: Lou~~, X.D.~~, Ran, T.T., Xu, D.Q., Wang, W.W~~.	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~Description: Crystal structure of PigE: a transaminase involved in the biosynthesis of 2-methyl-3-n-amyl-pyrrole (MAP) from Serratia sp. FS14~~	+	== References ==
-	[[Category: ~~Unreleased Structures~~]]	+	<references/>
-	[[Category: ~~Wang~~, ~~W.W~~]]	+	__TOC__
-	[[Category: ~~Ran~~, ~~T.T~~]]	+	</StructureSection>
-	[[Category: Xu, D.Q]]	+	[[Category: Lou, X D]]
-	[[Category: ~~Lou, X.D~~]]	+	[[Category: Ran, T T]]
		+	[[Category: Wang, W W]]
		+	[[Category: Xu, D Q]]
		+	[[Category: Transaminase]]
		+	[[Category: Transferase]]

OCA at 15:10, 24 December 2014

2014-12-24T15:10:26Z

←Older revision		Revision as of 15:10, 24 December 2014
Line 6:		Line 6:

	Description: Crystal structure of PigE: a transaminase involved in the biosynthesis of 2-methyl-3-n-amyl-pyrrole (MAP) from Serratia sp. FS14		Description: Crystal structure of PigE: a transaminase involved in the biosynthesis of 2-methyl-3-n-amyl-pyrrole (MAP) from Serratia sp. FS14
		+	[[Category: Unreleased Structures]]
		+	[[Category: Wang, W.W]]
		+	[[Category: Ran, T.T]]
		+	[[Category: Xu, D.Q]]
		+	[[Category: Lou, X.D]]

OCA at 13:12, 10 December 2014

2014-12-10T13:12:06Z

←Older revision		Revision as of 13:12, 10 December 2014
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 4ppm is ON HOLD	+	The entry 4ppm is ON HOLD until Paper Publication

	Authors: Lou, X.D., Ran, T.T., Xu, D.Q., Wang, W.W.		Authors: Lou, X.D., Ran, T.T., Xu, D.Q., Wang, W.W.

	Description: Crystal structure of PigE: a transaminase involved in the biosynthesis of 2-methyl-3-n-amyl-pyrrole (MAP) from Serratia sp. FS14		Description: Crystal structure of PigE: a transaminase involved in the biosynthesis of 2-methyl-3-n-amyl-pyrrole (MAP) from Serratia sp. FS14

OCA: Protected "4ppm" [edit=sysop:move=sysop]

2014-03-12T12:34:07Z

Protected "4ppm" [edit=sysop:move=sysop]

←Older revision

Revision as of 12:34, 12 March 2014

OCA: New page: '''Unreleased structure''' The entry 4ppm is ON HOLD Authors: Lou, X.D., Ran, T.T., Xu, D.Q., Wang, W.W. Description: Crystal structure of PigE: a transaminase involved in the biosynth...

2014-03-12T12:34:05Z

New page: '''Unreleased structure''' The entry 4ppm is ON HOLD Authors: Lou, X.D., Ran, T.T., Xu, D.Q., Wang, W.W. Description: Crystal structure of PigE: a transaminase involved in the biosynth...

New page

'''Unreleased structure'''

The entry 4ppm is ON HOLD

Authors: Lou, X.D., Ran, T.T., Xu, D.Q., Wang, W.W.

Description: Crystal structure of PigE: a transaminase involved in the biosynthesis of 2-methyl-3-n-amyl-pyrrole (MAP) from Serratia sp. FS14