5cli - Revision history

OCA at 08:39, 27 September 2023

2023-09-27T08:39:02Z

← Older revision		Revision as of 08:39, 27 September 2023
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	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[5cli]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Acetobacter_aceti_1023 Acetobacter aceti 1023]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5CLI OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5CLI FirstGlance]. <br>		<table><tr><td colspan='2'>[[5cli]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Acetobacter_aceti_1023 Acetobacter aceti 1023]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5CLI OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5CLI FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=AIR:5-AMINOIMIDAZOLE+RIBONUCLEOTIDE'>AIR</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]] 1.948Å</td></tr>
			<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=AIR:5-AMINOIMIDAZOLE+RIBONUCLEOTIDE'>AIR</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=5cli FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5cli OCA], [https://pdbe.org/5cli PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5cli RCSB], [https://www.ebi.ac.uk/pdbsum/5cli PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5cli 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=5cli FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5cli OCA], [https://pdbe.org/5cli PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5cli RCSB], [https://www.ebi.ac.uk/pdbsum/5cli PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5cli ProSAT]</span></td></tr>
	</table>		</table>

OCA at 12:13, 14 June 2023

2023-06-14T12:13:20Z

← Older revision		Revision as of 12:13, 14 June 2023
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	<StructureSection load='5cli' size='340' side='right'caption='[[5cli]], [[Resolution\|resolution]] 1.95Å' scene=''>		<StructureSection load='5cli' size='340' side='right'caption='[[5cli]], [[Resolution\|resolution]] 1.95Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[5cli]] is a 2 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Acetobacter_aceti_1023 Acetobacter aceti 1023]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5CLI OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5CLI FirstGlance]. <br>		<table><tr><td colspan='2'>[[5cli]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Acetobacter_aceti_1023 Acetobacter aceti 1023]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5CLI OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5CLI FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=AIR:5-AMINOIMIDAZOLE+RIBONUCLEOTIDE'>AIR</scene~~></td></tr>~~		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=AIR:5-AMINOIMIDAZOLE+RIBONUCLEOTIDE'>AIR</scene></td></tr>
	~~<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2fwj\|2fwj]], [[5clf\|5clf]], [[5clg\|5clg]], [[5clh\|5clh]], [[5clj\|5clj]]</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=5cli FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5cli OCA], [https://pdbe.org/5cli PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5cli RCSB], [https://www.ebi.ac.uk/pdbsum/5cli PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5cli ProSAT]</span></td></tr>
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">purE, AZ09_02690 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1457393 Acetobacter aceti 1023])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/5-(carboxyamino)imidazole_ribonucleotide_mutase 5-(carboxyamino)imidazole ribonucleotide mutase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=5.4.99.18 5.4.99.18] </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=5cli FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5cli OCA], [~~http~~://pdbe.org/5cli PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5cli RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5cli PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5cli ProSAT]</span></td></tr>
	</table>		</table>
	~~== Function ==~~
	[[http://www.uniprot.org/uniprot/A0A063X4U8_ACEAC A0A063X4U8_ACEAC]] Catalyzes the conversion of N5-carboxyaminoimidazole ribonucleotide (N5-CAIR) to 4-carboxy-5-aminoimidazole ribonucleotide (CAIR).[HAMAP-Rule:MF_01929]
	~~<div style="background-color:#fffaf0;">~~
	~~== Publication Abstract from PubMed ==~~
	N5-carboxyaminoimidazole ribonucleotide (N5-CAIR) mutase (PurE) catalyzes the reversible interconversion of acid-labile compounds N5-CAIR and 4-carboxy-5-aminoimidazole ribonucleotide (CAIR). We have examined PurE from the acidophilic bacterium Acetobacter aceti (AaPurE), focusing on its adaptation to acid pH and the roles of conserved residues His59 and His89. Both AaPurE and Escherichia coli PurE showed quasi-reversible acid-mediated inactivation, but wt AaPurE was much more stable at pH 3.5, with a > or = 20 degrees C higher thermal unfolding temperature at all pHs. His89 is not essential and does not function as part of a proton relay system. The kcat pH-rate profile was consistent with the assignment of pK1 to unproductive protonation of bound nucleotide and pK2 to deprotonation of His59. A 1.85 A resolution crystal structure of the inactive mutant H59N-AaPurE soaked in CAIR showed that protonation of CAIR C4 can occur in the absence of His59. The resulting species, modeled as isoCAIR [4(R)-carboxy-5-iminoimidazoline ribonucleotide], is strongly stabilized by extensive interactions with the enzyme and a water molecule. The carboxylate moiety is positioned in a small pocket proposed to facilitate nucleotide decarboxylation in the forward direction (N5-CAIR --> CAIR) [Meyer, E., Kappock, T. J., Osuji, C., and Stubbe, J. (1999) Biochemistry 38, 3012-3018]. Comparisons with model studies suggest that in the reverse (nonbiosynthetic) direction PurE favors protonation of CAIR C4. We suggest that the essential role of protonated His59 is to lower the barrier to decarboxylation by stabilizing a CO2-azaenolate intermediate.

	Biochemical and structural studies of N5-carboxyaminoimidazole ribonucleotide mutase from the acidophilic bacterium Acetobacter aceti.,Constantine CZ, Starks CM, Mill CP, Ransome AE, Karpowicz SJ, Francois JA, Goodman RA, Kappock TJ Biochemistry. 2006 Jul 11;45(27):8193-208. PMID:16819818<ref>PMID:16819818</ref>		==See Also==
			*[[Phosphoribosylaminoimidazole carboxylase 3D structures\|Phosphoribosylaminoimidazole carboxylase 3D structures]]
	~~From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>~~
	~~</div>~~
	~~<div class="pdbe-citations 5cli" style="background-color:#fffaf0;"></div>~~
	== ~~References~~ ==
	~~<references/>~~
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	[[Category: Acetobacter aceti 1023]]		[[Category: Acetobacter aceti 1023]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
	[[Category: Kappock~~, T J~~]]		[[Category: Kappock TJ]]
	[[Category: Starks~~, C M]]~~		[[Category: Starks CM]]
	~~[[Category: Acidophile]]~~
	~~[[Category: Isomerase]]~~
	~~[[Category: Pure]]~~
	~~[[Category: Purine biosynthesis~~]]

OCA at 07:29, 27 November 2019

2019-11-27T07:29:20Z

← Older revision		Revision as of 07:29, 27 November 2019
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	==Structure of PurE (N5-carboxyaminoimidazole ribonucleotide mutase) from the acidophilic bacterium Acetobacter aceti, complexed with AIR (5-aminoimidazole ribonucleotide)==		==Structure of PurE (N5-carboxyaminoimidazole ribonucleotide mutase) from the acidophilic bacterium Acetobacter aceti, complexed with AIR (5-aminoimidazole ribonucleotide)==
	<StructureSection load='5cli' size='340' side='right' caption='[[5cli]], [[Resolution\|resolution]] 1.95Å' scene=''>		<StructureSection load='5cli' size='340' side='right'caption='[[5cli]], [[Resolution\|resolution]] 1.95Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[5cli]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Acetobacter_aceti_1023 Acetobacter aceti 1023]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5CLI OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5CLI FirstGlance]. <br>		<table><tr><td colspan='2'>[[5cli]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Acetobacter_aceti_1023 Acetobacter aceti 1023]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5CLI OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5CLI FirstGlance]. <br>
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	</StructureSection>		</StructureSection>
	[[Category: Acetobacter aceti 1023]]		[[Category: Acetobacter aceti 1023]]
			[[Category: Large Structures]]
	[[Category: Kappock, T J]]		[[Category: Kappock, T J]]
	[[Category: Starks, C M]]		[[Category: Starks, C M]]

OCA at 16:36, 15 November 2017

2017-11-15T16:36:49Z

← Older revision		Revision as of 16:36, 15 November 2017
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	<StructureSection load='5cli' size='340' side='right' caption='[[5cli]], [[Resolution\|resolution]] 1.95Å' scene=''>		<StructureSection load='5cli' size='340' side='right' caption='[[5cli]], [[Resolution\|resolution]] 1.95Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[5cli]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5CLI OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5CLI FirstGlance]. <br>		<table><tr><td colspan='2'>[[5cli]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Acetobacter_aceti_1023 Acetobacter aceti 1023]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5CLI OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5CLI FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=AIR:5-AMINOIMIDAZOLE+RIBONUCLEOTIDE'>AIR</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=AIR:5-AMINOIMIDAZOLE+RIBONUCLEOTIDE'>AIR</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2fwj\|2fwj]], [[5clf\|5clf]], [[5clg\|5clg]], [[5clh\|5clh]], [[5clj\|5clj]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2fwj\|2fwj]], [[5clf\|5clf]], [[5clg\|5clg]], [[5clh\|5clh]], [[5clj\|5clj]]</td></tr>
			<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">purE, AZ09_02690 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1457393 Acetobacter aceti 1023])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/5-(carboxyamino)imidazole_ribonucleotide_mutase 5-(carboxyamino)imidazole ribonucleotide mutase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=5.4.99.18 5.4.99.18] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/5-(carboxyamino)imidazole_ribonucleotide_mutase 5-(carboxyamino)imidazole ribonucleotide mutase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=5.4.99.18 5.4.99.18] </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=5cli FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5cli OCA], [http://pdbe.org/5cli PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5cli RCSB], [http://www.ebi.ac.uk/pdbsum/5cli PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5cli 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=5cli FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5cli OCA], [http://pdbe.org/5cli PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5cli RCSB], [http://www.ebi.ac.uk/pdbsum/5cli PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5cli ProSAT]</span></td></tr>
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
			[[Category: Acetobacter aceti 1023]]
	[[Category: Kappock, T J]]		[[Category: Kappock, T J]]
	[[Category: Starks, C M]]		[[Category: Starks, C M]]

OCA at 15:35, 27 July 2016

2016-07-27T15:35:10Z

@@ Line 1: / Line 1: @@
-The entry 5cli is ON HOLD  until Paper Publication
+==Structure of PurE (N5-carboxyaminoimidazole ribonucleotide mutase) from the acidophilic bacterium Acetobacter aceti, complexed with AIR (5-aminoimidazole ribonucleotide)==
-Authors:
+Biochemical and structural studies of N5-carboxyaminoimidazole ribonucleotide mutase from the acidophilic bacterium Acetobacter aceti.,Constantine CZ, Starks CM, Mill CP, Ransome AE, Karpowicz SJ, Francois JA, Goodman RA, Kappock TJ Biochemistry. 2006 Jul 11;45(27):8193-208. PMID:16819818<ref>PMID:16819818</ref>
-Description:
+From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
-[[Category: Unreleased Structures]]
+</div>

OCA at 11:32, 15 May 2016

2016-05-15T11:32:32Z

← Older revision		Revision as of 11:32, 15 May 2016
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	The entry 5cli is ON HOLD until Paper Publication		The entry 5cli is ON HOLD until Paper Publication

	Authors: ~~Starks, C.M., Kappock, T.J.~~		Authors:

	Description:		Description:
	[[Category: Unreleased Structures]]		[[Category: Unreleased Structures]]
	~~[[Category: Starks, C.M]]~~
	~~[[Category: Kappock, T.J]]~~

OCA at 10:44, 2 September 2015

2015-09-02T10:44:54Z

← Older revision		Revision as of 10:44, 2 September 2015
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

	The entry 5cli is ON HOLD		The entry 5cli is ON HOLD until Paper Publication

	Authors: Starks, C.M., Kappock, T.J.		Authors: Starks, C.M., Kappock, T.J.

OCA at 11:56, 26 August 2015

2015-08-26T11:56:39Z

← Older revision		Revision as of 11:56, 26 August 2015
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

	The entry 5cli is ON HOLD ~~until Paper Publication~~		The entry 5cli is ON HOLD

	Authors: Starks, C.M., Kappock, T.J.		Authors: Starks, C.M., Kappock, T.J.

OCA at 10:52, 20 August 2015

2015-08-20T10:52:03Z

← Older revision		Revision as of 10:52, 20 August 2015
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

	The entry 5cli is ON HOLD		The entry 5cli is ON HOLD until Paper Publication

	Authors: Starks, C.M., Kappock, T.J.		Authors: Starks, C.M., Kappock, T.J.

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

2015-07-22T13:17:45Z

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

← Older revision	Revision as of 13:17, 22 July 2015
(No difference)