6hx7 - Revision history

OCA at 11:41, 24 January 2024

OCA — Wed, 24 Jan 2024 11:41:45 GMT

←Older revision		Revision as of 11:41, 24 January 2024
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	<StructureSection load='6hx7' size='340' side='right'caption='[[6hx7]], [[Resolution\|resolution]] 1.80Å' scene=''>		<StructureSection load='6hx7' size='340' side='right'caption='[[6hx7]], [[Resolution\|resolution]] 1.80Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6hx7]] is a 3 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Human Human~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6HX7 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=6HX7 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6hx7]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6HX7 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6HX7 FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat"~~><scene name='pdbligand=PLP:PYRIDOXAL-5-PHOSPHATE'>PLP</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]] 1.8Å</td></tr>
-	~~<tr~~ id~~='gene'><td class~~="~~sblockLbl~~">~~<b>~~[[~~Gene~~\|~~Gene:~~]]~~</b></td><td class="sblockDat">OAT ([http://www~~.~~ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info~~&~~srchmode=5&id=9606 HUMAN])~~</td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=PLP:PYRIDOXAL-5-PHOSPHATE'>PLP</scene></td></tr>
-	<tr id='~~activity~~'><td class="sblockLbl"><b>~~Activity~~:</b></td><td class="sblockDat"><~~span class~~='~~plainlinks~~'>~~[http://en.wikipedia.org/wiki/Ornithine_aminotransferase Ornithine aminotransferase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.6.1.13 2.6.1.13]~~ </~~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=6hx7 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6hx7 OCA], [https://pdbe.org/6hx7 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6hx7 RCSB], [https://www.ebi.ac.uk/pdbsum/6hx7 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6hx7 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=6hx7 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6hx7 OCA], [~~http~~://pdbe.org/6hx7 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=6hx7 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/6hx7 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=6hx7 ProSAT]</span></td></tr>	+
	</table>		</table>
	== Disease ==		== Disease ==
-	[~~[http~~://www.uniprot.org/uniprot/OAT_HUMAN OAT_HUMAN]] Defects in OAT are the cause of hyperornithinemia with gyrate atrophy of choroid and retina (HOGA) [MIM:[~~http~~://omim.org/entry/258870 258870]]. HOGA is a slowly progressive blinding autosomal recessive disorder.<ref>PMID:3375240</ref> <ref>PMID:2793865</ref> <ref>PMID:1612597</ref> <ref>PMID:1737786</ref> <ref>PMID:7887415</ref> <ref>PMID:7668253</ref>	+	[https://www.uniprot.org/uniprot/OAT_HUMAN OAT_HUMAN] Defects in OAT are the cause of hyperornithinemia with gyrate atrophy of choroid and retina (HOGA) [MIM:[https://omim.org/entry/258870 258870]. HOGA is a slowly progressive blinding autosomal recessive disorder.<ref>PMID:3375240</ref> <ref>PMID:2793865</ref> <ref>PMID:1612597</ref> <ref>PMID:1737786</ref> <ref>PMID:7887415</ref> <ref>PMID:7668253</ref>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/OAT_HUMAN OAT_HUMAN]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Human~~]]	+	[[Category: Homo sapiens]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Ornithine aminotransferase~~]]	+	[[Category: Borri Voltattorni C]]
-	[[Category: Cellini, B]]	+	[[Category: Cellini B]]
-	[[Category: Cutruzzola, F]]	+	[[Category: Cutruzzola F]]
-	[[Category: Giardina, G]]	+	[[Category: Giardina G]]
-	[[Category: Montioli, R]]	+	[[Category: Montioli R]]
-	~~[[Category: Voltattorni, C Borri]]~~	+
-	~~[[Category: Aminotransferase]]~~	+
-	~~[[Category: Transferase~~]]	+

OCA at 06:54, 31 July 2019

OCA — Wed, 31 Jul 2019 06:54:27 GMT

←Older revision		Revision as of 06:54, 31 July 2019
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	<StructureSection load='6hx7' size='340' side='right'caption='[[6hx7]], [[Resolution\|resolution]] 1.80Å' scene=''>		<StructureSection load='6hx7' size='340' side='right'caption='[[6hx7]], [[Resolution\|resolution]] 1.80Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6hx7]] is a 3 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6HX7 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6HX7 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6hx7]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/Human Human]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6HX7 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6HX7 FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><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=PLP:PYRIDOXAL-5-PHOSPHATE'>PLP</scene></td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">OAT ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 HUMAN])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Ornithine_aminotransferase Ornithine aminotransferase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.6.1.13 2.6.1.13] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Ornithine_aminotransferase Ornithine aminotransferase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.6.1.13 2.6.1.13] </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=6hx7 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6hx7 OCA], [http://pdbe.org/6hx7 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6hx7 RCSB], [http://www.ebi.ac.uk/pdbsum/6hx7 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6hx7 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=6hx7 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6hx7 OCA], [http://pdbe.org/6hx7 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6hx7 RCSB], [http://www.ebi.ac.uk/pdbsum/6hx7 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6hx7 ProSAT]</span></td></tr>
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Human]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
	[[Category: Ornithine aminotransferase]]		[[Category: Ornithine aminotransferase]]

OCA at 22:45, 5 June 2019

OCA — Wed, 05 Jun 2019 22:45:54 GMT

←Older revision		Revision as of 22:45, 5 June 2019
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 6hx7 is ~~ON HOLD~~ ~~until Paper~~ Publication	+	==Crystal structure of human R180T variant of ORNITHINE AMINOTRANSFERASE at 1.8 Angstrom==
		+	<StructureSection load='6hx7' size='340' side='right'caption='[[6hx7]], [[Resolution\|resolution]] 1.80Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[6hx7]] is a 3 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6HX7 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6HX7 FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=PLP:PYRIDOXAL-5-PHOSPHATE'>PLP</scene></td></tr>
		+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Ornithine_aminotransferase Ornithine aminotransferase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.6.1.13 2.6.1.13] </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=6hx7 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6hx7 OCA], [http://pdbe.org/6hx7 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6hx7 RCSB], [http://www.ebi.ac.uk/pdbsum/6hx7 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6hx7 ProSAT]</span></td></tr>
		+	</table>
		+	== Disease ==
		+	[[http://www.uniprot.org/uniprot/OAT_HUMAN OAT_HUMAN]] Defects in OAT are the cause of hyperornithinemia with gyrate atrophy of choroid and retina (HOGA) [MIM:[http://omim.org/entry/258870 258870]]. HOGA is a slowly progressive blinding autosomal recessive disorder.<ref>PMID:3375240</ref> <ref>PMID:2793865</ref> <ref>PMID:1612597</ref> <ref>PMID:1737786</ref> <ref>PMID:7887415</ref> <ref>PMID:7668253</ref>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Among the over 50 gyrate atrophy-causing mutations of ornithine delta-aminotransferase (OAT), the R180T involves an active site residue located at the dimer interface, which in the crystal structure of OAT complexed with 5-fluoromethylornithine engages a salt bridge with the alpha-carboxylate of the substrate analogue. Starting from the previous finding that no transaminase activity was detected in CHO-K1 cells expressing the R180T variant, here we try to shed light at the protein level on the structural and/or functional defects of the R180T variant. To this aim, the variant has been cloned, expressed, purified and characterized by a combination of biochemical and structural studies. Although the R180T variant shares a similar overall conformation with the wild-type, its crystal structure solved at 1.8 A reveals slight structural alterations at the active site and at the dimeric interface. These changes are consistent with the spectroscopic and kinetic results, indicating that the variant, as compared with the wild-type OAT, shows (a) an increased Km value for l-ornithine (l-Orn), (b) an altered pyridoxal 5'-phosphate binding mode and affinity and (c) an increased thermostability. In addition, the R180T mutant exhibits a remarkable loss of catalytic activity and is endowed with the ability to catalyse not only the delta-transamination but also, albeit to a lesser extent, the alpha-transamination of l-Orn. Overall, these data indicate that the slight structural changes caused by the R180T mutation, preventing a proper collocation of l-Orn at the active site of OAT, are responsible for the notable reduction of the catalytic efficiency. ENZYMES: Ornithine aminotransferase EC 2.6.1.13. DATABASES: 6HX7.pdb.

-	~~Authors~~: ~~Giardina~~, G., Montioli, R., ~~Cellini~~, B., ~~Cutruzzola~~, F., Borri Voltattorni, C.	+	R180T variant of delta-ornithine aminotransferase associated with gyrate atrophy: biochemical, computational, X-ray and NMR studies provide insight into its catalytic features.,Montioli R, Paiardini A, Giardina G, Zanzoni S, Cutruzzola F, Cellini B, Borri Voltattorni C FEBS J. 2019 Apr 8. doi: 10.1111/febs.14843. PMID:30957963<ref>PMID:30957963</ref>

-	~~Description: Crystal structure~~ of ~~human R180T variant~~ of ~~ORNITHINE AMINOTRANSFERASE at 1~~.~~8 Angstrom~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	~~[[Category~~: ~~Unreleased Structures]]~~	+	</div>
-	[[Category: ~~Cutruzzola, F~~]]	+	<div class="pdbe-citations 6hx7" style="background-color:#fffaf0;"></div>
-	[[Category: ~~Montioli, R~~]]	+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Large Structures]]
		+	[[Category: Ornithine aminotransferase]]
	[[Category: Cellini, B]]		[[Category: Cellini, B]]
		+	[[Category: Cutruzzola, F]]
	[[Category: Giardina, G]]		[[Category: Giardina, G]]
-	[[Category: ~~Borri~~ Voltattorni, C]]	+	[[Category: Montioli, R]]
		+	[[Category: Voltattorni, C Borri]]
		+	[[Category: Aminotransferase]]
		+	[[Category: Transferase]]

OCA: Protected "6hx7" [edit=sysop:move=sysop]

OCA — Wed, 24 Oct 2018 04:13:57 GMT

Protected "6hx7" [edit=sysop:move=sysop]

←Older revision

Revision as of 04:13, 24 October 2018

OCA: New page: '''Unreleased structure''' The entry 6hx7 is ON HOLD until Paper Publication Authors: Giardina, G., Montioli, R., Cellini, B., Cutruzzola, F., Borri Voltattorni, C. Description: Crysta...

OCA — Wed, 24 Oct 2018 04:13:55 GMT

New page: '''Unreleased structure''' The entry 6hx7 is ON HOLD until Paper Publication Authors: Giardina, G., Montioli, R., Cellini, B., Cutruzzola, F., Borri Voltattorni, C. Description: Crysta...

New page

'''Unreleased structure'''

The entry 6hx7 is ON HOLD until Paper Publication

Authors: Giardina, G., Montioli, R., Cellini, B., Cutruzzola, F., Borri Voltattorni, C.

Description: Crystal structure of human R180T variant of ORNITHINE AMINOTRANSFERASE at 1.8 Angstrom
[[Category: Unreleased Structures]]
[[Category: Cutruzzola, F]]
[[Category: Montioli, R]]
[[Category: Cellini, B]]
[[Category: Giardina, G]]
[[Category: Borri Voltattorni, C]]