1f2d - Revision history

OCA at 10:09, 20 March 2024

2024-03-20T10:09:24Z

←Older revision		Revision as of 10:09, 20 March 2024
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	<StructureSection load='1f2d' size='340' side='right'caption='[[1f2d]], [[Resolution\|resolution]] 2.00Å' scene=''>		<StructureSection load='1f2d' size='340' side='right'caption='[[1f2d]], [[Resolution\|resolution]] 2.00Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1f2d]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1F2D OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1F2D FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1f2d]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Cyberlindnera_saturnus Cyberlindnera saturnus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1F2D OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1F2D FirstGlance]. <br>
-	</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>~~, ~~<scene name='pdbligand=SO4:SULFATE+ION'>SO4</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]] 2Å</td></tr>
-	<tr id='~~activity~~'><td class="sblockLbl"><b>~~Activity~~:</b></td><td class="sblockDat"><~~span class~~='~~plainlinks~~'>~~[https:~~/~~/en.wikipedia.org/wiki/1-aminocyclopropane-1-carboxylate_deaminase 1-aminocyclopropane-1-carboxylate deaminase]~~, ~~with EC number [https~~:~~//www.brenda-enzymes.info/php/result_flat.php4?ecno=3.5.99.7 3.5.99.7]~~ </~~span~~></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>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</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=1f2d FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1f2d OCA], [https://pdbe.org/1f2d PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1f2d RCSB], [https://www.ebi.ac.uk/pdbsum/1f2d PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1f2d 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=1f2d FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1f2d OCA], [https://pdbe.org/1f2d PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1f2d RCSB], [https://www.ebi.ac.uk/pdbsum/1f2d PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1f2d ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[https://www.uniprot.org/uniprot/1A1D_CYBSA 1A1D_CYBSA]] Catalyzes a cyclopropane ring-opening reaction, the irreversible conversion of 1-aminocyclopropane-1-carboxylate (ACC) to ammonia and alpha-ketobutyrate.	+	[https://www.uniprot.org/uniprot/1A1D_CYBSA 1A1D_CYBSA] Catalyzes a cyclopropane ring-opening reaction, the irreversible conversion of 1-aminocyclopropane-1-carboxylate (ACC) to ammonia and alpha-ketobutyrate.
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
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	</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/main_output.php?pdb_ID=1f2d ConSurf].		</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/main_output.php?pdb_ID=1f2d ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
-	<div style="background-color:#fffaf0;">
-	== Publication Abstract from PubMed ==
-	The pyridoxal 5'-phosphate (PLP)-dependent enzyme 1-aminocyclopropane-1-carboxylate deaminase (ACCD) catalyzes a reaction that involves a ring opening of cyclopropanoid amino acid, yielding alpha-ketobutyrate and ammonia. Unlike other PLP-dependent enzymes, this enzyme has no alpha-hydrogen atom in the substrate. Thus, a unique mechanism for the bond cleavage is expected. The crystal structure of ACCD from Hansenula saturnus has been determined at 2.0 A resolution by the multiple wavelength anomalous diffraction method using mercury atoms as anomalous scatterers. The model was built on the electron density map, which was obtained by the density averaging of multiple crystal forms. The final model was refined to an R-factor of 22.5% and an R(free)-factor of 26.8%. The ACCD folds into two domains, each of which has an open twisted alpha/beta structure similar to the beta-subunit of tryptophan synthase. However, in ACCD, unlike in other members of the beta family of PLP-dependent enzymes, PLP is buried deep in the molecule. The structure provides the first view of the catalytic center of the cyclopropane ring opening.
-
-	Crystal structure of 1-aminocyclopropane-1-carboxylate deaminase from Hansenula saturnus.,Yao M, Ose T, Sugimoto H, Horiuchi A, Nakagawa A, Wakatsuki S, Yokoi D, Murakami T, Honma M, Tanaka I J Biol Chem. 2000 Nov 3;275(44):34557-65. PMID:10938279<ref>PMID:10938279</ref>
-
-	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	</div>
-	<div class="pdbe-citations 1f2d" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
	*[[Deaminase 3D structures\|Deaminase 3D structures]]		*[[Deaminase 3D structures\|Deaminase 3D structures]]
-	== References ==
-	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~1-aminocyclopropane-1-carboxylate deaminase~~]]	+	[[Category: Cyberlindnera saturnus]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Honma, M]]	+	[[Category: Honma M]]
-	[[Category: Horiuchi, A]]	+	[[Category: Horiuchi A]]
-	[[Category: Murakami, T]]	+	[[Category: Murakami T]]
-	[[Category: Nakagawa, A]]	+	[[Category: Nakagawa A]]
-	[[Category: Ose, T]]	+	[[Category: Ose T]]
-	[[Category: Sugimoto, H]]	+	[[Category: Sugimoto H]]
-	[[Category: Tanaka, I]]	+	[[Category: Tanaka I]]
-	[[Category: Wakatsuki, S]]	+	[[Category: Wakatsuki S]]
-	[[Category: Yao, M]]	+	[[Category: Yao M]]
-	[[Category: Yokoi, D]]	+	[[Category: Yokoi D]]
-	~~[[Category: Carbon-carbon lyase]]~~	+
-	~~[[Category: Lyase]]~~	+
-	~~[[Category: Open twisted alpha/beta~~]]	+

OCA at 07:18, 17 March 2021

2021-03-17T07:18:19Z

←Older revision		Revision as of 07:18, 17 March 2021
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	<StructureSection load='1f2d' size='340' side='right'caption='[[1f2d]], [[Resolution\|resolution]] 2.00Å' scene=''>		<StructureSection load='1f2d' size='340' side='right'caption='[[1f2d]], [[Resolution\|resolution]] 2.00Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1f2d]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1F2D OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=1F2D FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1f2d]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1F2D OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1F2D 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>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>	+	</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>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://en.wikipedia.org/wiki/1-aminocyclopropane-1-carboxylate_deaminase 1-aminocyclopropane-1-carboxylate deaminase], with EC number [~~http~~://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.5.99.7 3.5.99.7] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/1-aminocyclopropane-1-carboxylate_deaminase 1-aminocyclopropane-1-carboxylate deaminase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.5.99.7 3.5.99.7] </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=1f2d FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1f2d OCA], [~~http~~://pdbe.org/1f2d PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=1f2d RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/1f2d PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=1f2d 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=1f2d FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1f2d OCA], [https://pdbe.org/1f2d PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1f2d RCSB], [https://www.ebi.ac.uk/pdbsum/1f2d PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1f2d ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[~~http~~://www.uniprot.org/uniprot/1A1D_CYBSA 1A1D_CYBSA]] Catalyzes a cyclopropane ring-opening reaction, the irreversible conversion of 1-aminocyclopropane-1-carboxylate (ACC) to ammonia and alpha-ketobutyrate.	+	[[https://www.uniprot.org/uniprot/1A1D_CYBSA 1A1D_CYBSA]] Catalyzes a cyclopropane ring-opening reaction, the irreversible conversion of 1-aminocyclopropane-1-carboxylate (ACC) to ammonia and alpha-ketobutyrate.
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]

OCA at 06:39, 12 June 2019

2019-06-12T06:39:51Z

←Older revision		Revision as of 06:39, 12 June 2019
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	==1-AMINOCYCLOPROPANE-1-CARBOXYLATE DEAMINASE==		==1-AMINOCYCLOPROPANE-1-CARBOXYLATE DEAMINASE==
-	<StructureSection load='1f2d' size='340' side='right' caption='[[1f2d]], [[Resolution\|resolution]] 2.00Å' scene=''>	+	<StructureSection load='1f2d' size='340' side='right'caption='[[1f2d]], [[Resolution\|resolution]] 2.00Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[1f2d]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1F2D OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1F2D FirstGlance]. <br>		<table><tr><td colspan='2'>[[1f2d]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1F2D OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1F2D FirstGlance]. <br>
Line 14:		Line 14:
	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
-	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/f2/1f2d_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/f2/1f2d_consurf.spt"</scriptWhenChecked>
	<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>		<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
	<text>to colour the structure by Evolutionary Conservation</text>		<text>to colour the structure by Evolutionary Conservation</text>
Line 31:		Line 31:

	==See Also==		==See Also==
-	*[[Deaminase\|Deaminase]]	+	*[[Deaminase 3D structures\|Deaminase 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
Line 37:		Line 37:
	</StructureSection>		</StructureSection>
	[[Category: 1-aminocyclopropane-1-carboxylate deaminase]]		[[Category: 1-aminocyclopropane-1-carboxylate deaminase]]
		+	[[Category: Large Structures]]
	[[Category: Honma, M]]		[[Category: Honma, M]]
	[[Category: Horiuchi, A]]		[[Category: Horiuchi, A]]

OCA at 03:52, 6 September 2017

2017-09-06T03:52:53Z

←Older revision		Revision as of 03:52, 6 September 2017
Line 1:		Line 1:
		+
	==1-AMINOCYCLOPROPANE-1-CARBOXYLATE DEAMINASE==		==1-AMINOCYCLOPROPANE-1-CARBOXYLATE DEAMINASE==
	<StructureSection load='1f2d' size='340' side='right' caption='[[1f2d]], [[Resolution\|resolution]] 2.00Å' scene=''>		<StructureSection load='1f2d' size='340' side='right' caption='[[1f2d]], [[Resolution\|resolution]] 2.00Å' scene=''>
Line 5:		Line 6:
	</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>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</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>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/1-aminocyclopropane-1-carboxylate_deaminase 1-aminocyclopropane-1-carboxylate deaminase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.5.99.7 3.5.99.7] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/1-aminocyclopropane-1-carboxylate_deaminase 1-aminocyclopropane-1-carboxylate deaminase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.5.99.7 3.5.99.7] </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=1f2d FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1f2d OCA], [http://pdbe.org/1f2d PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1f2d RCSB], [http://www.ebi.ac.uk/pdbsum/1f2d 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=1f2d FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1f2d OCA], [http://pdbe.org/1f2d PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1f2d RCSB], [http://www.ebi.ac.uk/pdbsum/1f2d PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1f2d ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 17:		Line 18:
	<text>to colour the structure by Evolutionary Conservation</text>		<text>to colour the structure by Evolutionary Conservation</text>
	</jmolCheckbox>		</jmolCheckbox>
-	</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/~~chain_selection~~.php?pdb_ID=~~2ata~~ ConSurf].	+	</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/main_output.php?pdb_ID=1f2d ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 21:49, 11 September 2015

2015-09-11T21:49:52Z

←Older revision		Revision as of 21:49, 11 September 2015
Line 2:		Line 2:
	<StructureSection load='1f2d' size='340' side='right' caption='[[1f2d]], [[Resolution\|resolution]] 2.00Å' scene=''>		<StructureSection load='1f2d' size='340' side='right' caption='[[1f2d]], [[Resolution\|resolution]] 2.00Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1f2d]] is a 4 chain structure ~~with sequence from [http://en.wikipedia.org/wiki/Cyberlindnera_saturnus Cyberlindnera saturnus]~~. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1F2D OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1F2D FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1f2d]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1F2D OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1F2D 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>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</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>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/1-aminocyclopropane-1-carboxylate_deaminase 1-aminocyclopropane-1-carboxylate deaminase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.5.99.7 3.5.99.7] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/1-aminocyclopropane-1-carboxylate_deaminase 1-aminocyclopropane-1-carboxylate deaminase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.5.99.7 3.5.99.7] </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=1f2d FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1f2d OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1f2d RCSB], [http://www.ebi.ac.uk/pdbsum/1f2d 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=1f2d FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1f2d OCA], [http://pdbe.org/1f2d PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1f2d RCSB], [http://www.ebi.ac.uk/pdbsum/1f2d PDBsum]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[http://www.uniprot.org/uniprot/~~1A1D_WILSA 1A1D_WILSA~~]] Catalyzes a cyclopropane ring-opening reaction, the irreversible conversion of 1-aminocyclopropane-1-carboxylate (ACC) to ammonia and alpha-ketobutyrate.	+	[[http://www.uniprot.org/uniprot/1A1D_CYBSA 1A1D_CYBSA]] Catalyzes a cyclopropane ring-opening reaction, the irreversible conversion of 1-aminocyclopropane-1-carboxylate (ACC) to ammonia and alpha-ketobutyrate.
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 27:		Line 27:
	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 1f2d" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
Line 35:		Line 36:
	</StructureSection>		</StructureSection>
	[[Category: 1-aminocyclopropane-1-carboxylate deaminase]]		[[Category: 1-aminocyclopropane-1-carboxylate deaminase]]
-	[[Category: Cyberlindnera saturnus]]
	[[Category: Honma, M]]		[[Category: Honma, M]]
	[[Category: Horiuchi, A]]		[[Category: Horiuchi, A]]

OCA at 20:03, 25 December 2014

2014-12-25T20:03:40Z

←Older revision		Revision as of 20:03, 25 December 2014
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	<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=1f2d FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1f2d OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1f2d RCSB], [http://www.ebi.ac.uk/pdbsum/1f2d 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=1f2d FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1f2d OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1f2d RCSB], [http://www.ebi.ac.uk/pdbsum/1f2d PDBsum]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/1A1D_WILSA 1A1D_WILSA]] Catalyzes a cyclopropane ring-opening reaction, the irreversible conversion of 1-aminocyclopropane-1-carboxylate (ACC) to ammonia and alpha-ketobutyrate.
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]

OCA at 20:13, 22 December 2014

2014-12-22T20:13:46Z

←Older revision		Revision as of 20:13, 22 December 2014
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[1f2d]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Cyberlindnera_saturnus Cyberlindnera saturnus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1F2D OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1F2D FirstGlance]. <br>		<table><tr><td colspan='2'>[[1f2d]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Cyberlindnera_saturnus Cyberlindnera saturnus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1F2D OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1F2D FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=PLP:PYRIDOXAL-5-PHOSPHATE'>PLP</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene><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>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
-	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/1-aminocyclopropane-1-carboxylate_deaminase 1-aminocyclopropane-1-carboxylate deaminase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.5.99.7 3.5.99.7] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/1-aminocyclopropane-1-carboxylate_deaminase 1-aminocyclopropane-1-carboxylate deaminase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.5.99.7 3.5.99.7] </span></td></tr>
-	<tr><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1f2d FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1f2d OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1f2d RCSB], [http://www.ebi.ac.uk/pdbsum/1f2d 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=1f2d FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1f2d OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1f2d RCSB], [http://www.ebi.ac.uk/pdbsum/1f2d PDBsum]</span></td></tr>
-	<table>	+	</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
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	[[Category: 1-aminocyclopropane-1-carboxylate deaminase]]		[[Category: 1-aminocyclopropane-1-carboxylate deaminase]]
	[[Category: Cyberlindnera saturnus]]		[[Category: Cyberlindnera saturnus]]
-	[[Category: Honma, M.]]	+	[[Category: Honma, M]]
-	[[Category: Horiuchi, A.]]	+	[[Category: Horiuchi, A]]
-	[[Category: Murakami, T.]]	+	[[Category: Murakami, T]]
-	[[Category: Nakagawa, A.]]	+	[[Category: Nakagawa, A]]
-	[[Category: Ose, T.]]	+	[[Category: Ose, T]]
-	[[Category: Sugimoto, H.]]	+	[[Category: Sugimoto, H]]
-	[[Category: Tanaka, I.]]	+	[[Category: Tanaka, I]]
-	[[Category: Wakatsuki, S.]]	+	[[Category: Wakatsuki, S]]
-	[[Category: Yao, M.]]	+	[[Category: Yao, M]]
-	[[Category: Yokoi, D.]]	+	[[Category: Yokoi, D]]
	[[Category: Carbon-carbon lyase]]		[[Category: Carbon-carbon lyase]]
	[[Category: Lyase]]		[[Category: Lyase]]
	[[Category: Open twisted alpha/beta]]		[[Category: Open twisted alpha/beta]]

OCA at 10:04, 28 September 2014

2014-09-28T10:04:10Z

←Older revision		Revision as of 10:04, 28 September 2014
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-	[[~~Image~~:1f2d.~~png\|left~~\|200px]]	+	==1-AMINOCYCLOPROPANE-1-CARBOXYLATE DEAMINASE==
		+	<StructureSection load='1f2d' size='340' side='right' caption='[[1f2d]], [[Resolution\|resolution]] 2.00Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[1f2d]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Cyberlindnera_saturnus Cyberlindnera saturnus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1F2D OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1F2D FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=PLP:PYRIDOXAL-5-PHOSPHATE'>PLP</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene><br>
		+	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/1-aminocyclopropane-1-carboxylate_deaminase 1-aminocyclopropane-1-carboxylate deaminase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.5.99.7 3.5.99.7] </span></td></tr>
		+	<tr><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1f2d FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1f2d OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1f2d RCSB], [http://www.ebi.ac.uk/pdbsum/1f2d PDBsum]</span></td></tr>
		+	<table>
		+	== Evolutionary Conservation ==
		+	[[Image:Consurf_key_small.gif\|200px\|right]]
		+	Check<jmol>
		+	<jmolCheckbox>
		+	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/f2/1f2d_consurf.spt"</scriptWhenChecked>
		+	<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
		+	<text>to colour the structure by Evolutionary Conservation</text>
		+	</jmolCheckbox>
		+	</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/chain_selection.php?pdb_ID=2ata ConSurf].
		+	<div style="clear:both"></div>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	The pyridoxal 5'-phosphate (PLP)-dependent enzyme 1-aminocyclopropane-1-carboxylate deaminase (ACCD) catalyzes a reaction that involves a ring opening of cyclopropanoid amino acid, yielding alpha-ketobutyrate and ammonia. Unlike other PLP-dependent enzymes, this enzyme has no alpha-hydrogen atom in the substrate. Thus, a unique mechanism for the bond cleavage is expected. The crystal structure of ACCD from Hansenula saturnus has been determined at 2.0 A resolution by the multiple wavelength anomalous diffraction method using mercury atoms as anomalous scatterers. The model was built on the electron density map, which was obtained by the density averaging of multiple crystal forms. The final model was refined to an R-factor of 22.5% and an R(free)-factor of 26.8%. The ACCD folds into two domains, each of which has an open twisted alpha/beta structure similar to the beta-subunit of tryptophan synthase. However, in ACCD, unlike in other members of the beta family of PLP-dependent enzymes, PLP is buried deep in the molecule. The structure provides the first view of the catalytic center of the cyclopropane ring opening.

-	~~{{STRUCTURE_1f2d\| PDB=1f2d \| SCENE= }}~~	+	Crystal structure of 1-aminocyclopropane-1-carboxylate deaminase from Hansenula saturnus.,Yao M, Ose T, Sugimoto H, Horiuchi A, Nakagawa A, Wakatsuki S, Yokoi D, Murakami T, Honma M, Tanaka I J Biol Chem. 2000 Nov 3;275(44):34557-65. PMID:10938279<ref>PMID:10938279</ref>

-	~~===1-AMINOCYCLOPROPANE-1-CARBOXYLATE DEAMINASE===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>

-		+	==See Also==
-	==~~About this Structure~~==	+	*[[Deaminase\|Deaminase]]
-	[[~~1f2d~~]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Cyberlindnera_saturnus Cyberlindnera saturnus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1F2D OCA].	+	== References ==
-		+	<references/>
-	==~~Reference~~==	+	__TOC__
-	<~~ref group="xtra">PMID:010938279<~~/~~ref~~><~~ref group="xtra">PMID:012882962</ref><references group="xtra"~~/>	+	</StructureSection>
	[[Category: 1-aminocyclopropane-1-carboxylate deaminase]]		[[Category: 1-aminocyclopropane-1-carboxylate deaminase]]
	[[Category: Cyberlindnera saturnus]]		[[Category: Cyberlindnera saturnus]]

OCA: Protected "1f2d" [edit=sysop:move=sysop]

2012-11-14T07:32:57Z

Protected "1f2d" [edit=sysop:move=sysop]

←Older revision

Revision as of 07:32, 14 November 2012

OCA at 07:32, 14 November 2012

2012-11-14T07:32:55Z

←Older revision		Revision as of 07:32, 14 November 2012
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-	{{Seed}}
	[[Image:1f2d.png\|left\|200px]]		[[Image:1f2d.png\|left\|200px]]

-	<!--
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-	or leave the SCENE parameter empty for the default display.
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	{{STRUCTURE_1f2d\| PDB=1f2d \| SCENE= }}		{{STRUCTURE_1f2d\| PDB=1f2d \| SCENE= }}

	===1-AMINOCYCLOPROPANE-1-CARBOXYLATE DEAMINASE===		===1-AMINOCYCLOPROPANE-1-CARBOXYLATE DEAMINASE===

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_10938279}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 10938279 is the PubMed ID number.
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-	{{ABSTRACT_PUBMED_10938279}}

	==About this Structure==		==About this Structure==
-	~~1F2D~~ is a 4 ~~chains~~ structure ~~of sequences~~ from [http://en.wikipedia.org/wiki/~~Williopsis_saturnus Williopsis~~ saturnus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1F2D OCA].	+	[[1f2d]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Cyberlindnera_saturnus Cyberlindnera saturnus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1F2D OCA].

	==Reference==		==Reference==
-	<ref group="xtra">PMID:~~10938279~~</ref><references group="xtra"/>	+	<ref group="xtra">PMID:010938279</ref><ref group="xtra">PMID:012882962</ref><references group="xtra"/>
	[[Category: 1-aminocyclopropane-1-carboxylate deaminase]]		[[Category: 1-aminocyclopropane-1-carboxylate deaminase]]
-	[[Category: ~~Williopsis~~ saturnus]]	+	[[Category: Cyberlindnera saturnus]]
	[[Category: Honma, M.]]		[[Category: Honma, M.]]
	[[Category: Horiuchi, A.]]		[[Category: Horiuchi, A.]]
Line 37:		Line 24:
	[[Category: Yokoi, D.]]		[[Category: Yokoi, D.]]
	[[Category: Carbon-carbon lyase]]		[[Category: Carbon-carbon lyase]]
		+	[[Category: Lyase]]
	[[Category: Open twisted alpha/beta]]		[[Category: Open twisted alpha/beta]]
-
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Feb 18 05:34:40 2009''