2e2k - Revision history

OCA at 08:34, 25 October 2023

2023-10-25T08:34:02Z

← Older revision		Revision as of 08:34, 25 October 2023
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	<StructureSection load='2e2k' size='340' side='right'caption='[[2e2k]], [[Resolution\|resolution]] 2.50Å' scene=''>		<StructureSection load='2e2k' size='340' side='right'caption='[[2e2k]], [[Resolution\|resolution]] 2.50Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2e2k]] is a 6 chain structure with sequence from [https://en.wikipedia.org/wiki/~~Campylobacter_pylori Campylobacter~~ pylori]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2E2K OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2E2K FirstGlance]. <br>		<table><tr><td colspan='2'>[[2e2k]] is a 6 chain structure with sequence from [https://en.wikipedia.org/wiki/Helicobacter_pylori_26695 Helicobacter pylori 26695]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2E2K OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2E2K FirstGlance]. <br>
	</td></tr><tr id='~~related~~'><td class="sblockLbl"><b>[[~~Related_structure~~\|~~Related~~:]]</b></td><td class="sblockDat"~~><div style='overflow: auto; max-height: 3em;'>[[2dyu\|2dyu]], [[2dyv\|2dyv]], [[2e2l\|2e2l]]</div></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]] 2.5Å</td></tr>
	~~<tr~~ id~~='gene'><td class~~="~~sblockLbl~~">~~<b>~~[[~~Gene~~\|~~Gene:~~]]~~</b></td><td class="sblockDat">amiF ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax~~.~~cgi?mode=Info&srchmode=~~5&~~id=85962 Campylobacter pylori])</td></tr>~~
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/Formamidase Formamidase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.5.1.49 3.5.1.49] </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=2e2k FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2e2k OCA], [https://pdbe.org/2e2k PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2e2k RCSB], [https://www.ebi.ac.uk/pdbsum/2e2k PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2e2k 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=2e2k FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2e2k OCA], [https://pdbe.org/2e2k PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2e2k RCSB], [https://www.ebi.ac.uk/pdbsum/2e2k PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2e2k ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
	[[https://www.uniprot.org/uniprot/AMIF_HELPY AMIF_HELPY]] Is an aliphatic amidase with a restricted substrate specificity, as it only hydrolyzes formamide. Probably involved in the nitrogen metabolism of H.pylori.<ref>PMID:11359566</ref>		[https://www.uniprot.org/uniprot/AMIF_HELPY AMIF_HELPY] Is an aliphatic amidase with a restricted substrate specificity, as it only hydrolyzes formamide. Probably involved in the nitrogen metabolism of H.pylori.<ref>PMID:11359566</ref>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	[[Category: ~~Campylobacter~~ pylori]]		[[Category: Helicobacter pylori 26695]]
	~~[[Category: Formamidase~~]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
	[[Category: Hung~~, C L~~]]		[[Category: Hung CL]]
	[[Category: Wang~~, W C]]~~		[[Category: Wang WC]]
	~~[[Category: Aliphatic amidase]]~~
	~~[[Category: Amif]]~~
	~~[[Category: C166]]~~
	~~[[Category: Catalytic triad]]~~
	~~[[Category: Cek]]~~
	~~[[Category: Helicobacter pylori]]~~
	~~[[Category: Hydrolase~~]]

OCA at 11:45, 10 February 2021

2021-02-10T11:45:16Z

← Older revision		Revision as of 11:45, 10 February 2021
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	==Helicobacter pylori formamidase AmiF contains a fine-tuned cysteine-glutamate-lysine catalytic triad==		==Helicobacter pylori formamidase AmiF contains a fine-tuned cysteine-glutamate-lysine catalytic triad==
	<StructureSection load='2e2k' size='340' side='right' caption='[[2e2k]], [[Resolution\|resolution]] 2.50Å' scene=''>		<StructureSection load='2e2k' size='340' side='right'caption='[[2e2k]], [[Resolution\|resolution]] 2.50Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2e2k]] is a 6 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Campylobacter_pylori Campylobacter pylori]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2E2K OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=2E2K FirstGlance]. <br>		<table><tr><td colspan='2'>[[2e2k]] is a 6 chain structure with sequence from [https://en.wikipedia.org/wiki/Campylobacter_pylori Campylobacter pylori]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2E2K OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2E2K FirstGlance]. <br>
	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2dyu\|2dyu]], [[2dyv\|2dyv]], [[2e2l\|2e2l]]</td></tr>		</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[2dyu\|2dyu]], [[2dyv\|2dyv]], [[2e2l\|2e2l]]</div></td></tr>
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">amiF ([~~http~~://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=85962 Campylobacter pylori])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">amiF ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=85962 Campylobacter pylori])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://en.wikipedia.org/wiki/Formamidase Formamidase], with EC number [~~http~~://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.5.1.49 3.5.1.49] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/Formamidase Formamidase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.5.1.49 3.5.1.49] </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=2e2k FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2e2k OCA], [~~http~~://pdbe.org/2e2k PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=2e2k RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/2e2k PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=2e2k 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=2e2k FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2e2k OCA], [https://pdbe.org/2e2k PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2e2k RCSB], [https://www.ebi.ac.uk/pdbsum/2e2k PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2e2k ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
	[[~~http~~://www.uniprot.org/uniprot/AMIF_HELPY AMIF_HELPY]] Is an aliphatic amidase with a restricted substrate specificity, as it only hydrolyzes formamide. Probably involved in the nitrogen metabolism of H.pylori.<ref>PMID:11359566</ref>		[[https://www.uniprot.org/uniprot/AMIF_HELPY AMIF_HELPY]] Is an aliphatic amidase with a restricted substrate specificity, as it only hydrolyzes formamide. Probably involved in the nitrogen metabolism of H.pylori.<ref>PMID:11359566</ref>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
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	[[Category: Campylobacter pylori]]		[[Category: Campylobacter pylori]]
	[[Category: Formamidase]]		[[Category: Formamidase]]
			[[Category: Large Structures]]
	[[Category: Hung, C L]]		[[Category: Hung, C L]]
	[[Category: Wang, W C]]		[[Category: Wang, W C]]

OCA at 06:40, 6 June 2018

2018-06-06T06:40:59Z

← Older revision		Revision as of 06:40, 6 June 2018
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	==Helicobacter pylori formamidase AmiF contains a fine-tuned cysteine-glutamate-lysine catalytic triad==		==Helicobacter pylori formamidase AmiF contains a fine-tuned cysteine-glutamate-lysine catalytic triad==
	<StructureSection load='2e2k' size='340' side='right' caption='[[2e2k]], [[Resolution\|resolution]] 2.50Å' scene=''>		<StructureSection load='2e2k' size='340' side='right' caption='[[2e2k]], [[Resolution\|resolution]] 2.50Å' scene=''>
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	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">amiF ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=85962 Campylobacter pylori])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">amiF ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=85962 Campylobacter pylori])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Formamidase Formamidase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.5.1.49 3.5.1.49] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Formamidase Formamidase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.5.1.49 3.5.1.49] </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=2e2k FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2e2k OCA], [http://pdbe.org/2e2k PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2e2k RCSB], [http://www.ebi.ac.uk/pdbsum/2e2k 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=2e2k FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2e2k OCA], [http://pdbe.org/2e2k PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2e2k RCSB], [http://www.ebi.ac.uk/pdbsum/2e2k PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2e2k ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
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	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/e2/2e2k_consurf.spt"</scriptWhenChecked>		<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/e2/2e2k_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>

OCA at 04:24, 10 February 2016

2016-02-10T04:24:30Z

← Older revision		Revision as of 04:24, 10 February 2016
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	<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=2e2k ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 05:21, 11 September 2015

2015-09-11T05:21:18Z

← Older revision		Revision as of 05:21, 11 September 2015
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	<StructureSection load='2e2k' size='340' side='right' caption='[[2e2k]], [[Resolution\|resolution]] 2.50Å' scene=''>		<StructureSection load='2e2k' size='340' side='right' caption='[[2e2k]], [[Resolution\|resolution]] 2.50Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2e2k]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Helicobacter_pylori Helicobacter~~ pylori]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2E2K OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2E2K FirstGlance]. <br>		<table><tr><td colspan='2'>[[2e2k]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/Campylobacter_pylori Campylobacter pylori]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2E2K OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2E2K FirstGlance]. <br>
	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2dyu\|2dyu]], [[2dyv\|2dyv]], [[2e2l\|2e2l]]</td></tr>		</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2dyu\|2dyu]], [[2dyv\|2dyv]], [[2e2l\|2e2l]]</td></tr>
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">amiF ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=~~210 Helicobacter~~ pylori])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">amiF ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=85962 Campylobacter pylori])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Formamidase Formamidase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.5.1.49 3.5.1.49] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Formamidase Formamidase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.5.1.49 3.5.1.49] </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=2e2k FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2e2k OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2e2k RCSB], [http://www.ebi.ac.uk/pdbsum/2e2k 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=2e2k FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2e2k OCA], [http://pdbe.org/2e2k PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2e2k RCSB], [http://www.ebi.ac.uk/pdbsum/2e2k PDBsum]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
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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 2e2k" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
			[[Category: Campylobacter pylori]]
	[[Category: Formamidase]]		[[Category: Formamidase]]
	~~[[Category: Helicobacter pylori]]~~
	[[Category: Hung, C L]]		[[Category: Hung, C L]]
	[[Category: Wang, W C]]		[[Category: Wang, W C]]
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	[[Category: Catalytic triad]]		[[Category: Catalytic triad]]
	[[Category: Cek]]		[[Category: Cek]]
			[[Category: Helicobacter pylori]]
	[[Category: Hydrolase]]		[[Category: Hydrolase]]

OCA at 11:46, 25 December 2014

2014-12-25T11:46:36Z

← Older revision		Revision as of 11:46, 25 December 2014
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2e2k]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/Helicobacter_pylori Helicobacter pylori]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2E2K OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2E2K FirstGlance]. <br>		<table><tr><td colspan='2'>[[2e2k]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/Helicobacter_pylori Helicobacter pylori]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2E2K OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2E2K FirstGlance]. <br>
	</td></tr><tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2dyu\|2dyu]], [[2dyv\|2dyv]], [[2e2l\|2e2l]]</td></tr>		</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2dyu\|2dyu]], [[2dyv\|2dyv]], [[2e2l\|2e2l]]</td></tr>
	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">amiF ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=210 Helicobacter pylori])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">amiF ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=210 Helicobacter pylori])</td></tr>
	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Formamidase Formamidase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.5.1.49 3.5.1.49] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Formamidase Formamidase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.5.1.49 3.5.1.49] </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=2e2k FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2e2k OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2e2k RCSB], [http://www.ebi.ac.uk/pdbsum/2e2k 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=2e2k FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2e2k OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2e2k RCSB], [http://www.ebi.ac.uk/pdbsum/2e2k PDBsum]</span></td></tr>
	<table>		</table>
			== Function ==
			[[http://www.uniprot.org/uniprot/AMIF_HELPY AMIF_HELPY]] Is an aliphatic amidase with a restricted substrate specificity, as it only hydrolyzes formamide. Probably involved in the nitrogen metabolism of H.pylori.<ref>PMID:11359566</ref>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 32:		Line 34:
	[[Category: Formamidase]]		[[Category: Formamidase]]
	[[Category: Helicobacter pylori]]		[[Category: Helicobacter pylori]]
	[[Category: Hung, C L.]]		[[Category: Hung, C L]]
	[[Category: Wang, W C.]]		[[Category: Wang, W C]]
	[[Category: Aliphatic amidase]]		[[Category: Aliphatic amidase]]
	[[Category: Amif]]		[[Category: Amif]]
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	[[Category: Catalytic triad]]		[[Category: Catalytic triad]]
	[[Category: Cek]]		[[Category: Cek]]
	~~[[Category: Formamidase]]~~
	~~[[Category: Helicobacter pylori]]~~
	[[Category: Hydrolase]]		[[Category: Hydrolase]]

OCA at 00:50, 30 September 2014

2014-09-30T00:50:39Z

← Older revision		Revision as of 00:50, 30 September 2014
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	[[Image:~~2e2k~~.~~png~~\|~~left~~\|~~200px~~]]		==Helicobacter pylori formamidase AmiF contains a fine-tuned cysteine-glutamate-lysine catalytic triad==
			<StructureSection load='2e2k' size='340' side='right' caption='[[2e2k]], [[Resolution\|resolution]] 2.50Å' scene=''>
			== Structural highlights ==
			<table><tr><td colspan='2'>[[2e2k]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/Helicobacter_pylori Helicobacter pylori]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2E2K OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2E2K FirstGlance]. <br>
			</td></tr><tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2dyu\|2dyu]], [[2dyv\|2dyv]], [[2e2l\|2e2l]]</td></tr>
			<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">amiF ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=210 Helicobacter pylori])</td></tr>
			<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Formamidase Formamidase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.5.1.49 3.5.1.49] </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=2e2k FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2e2k OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2e2k RCSB], [http://www.ebi.ac.uk/pdbsum/2e2k 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/e2/2e2k_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 ==
			Helicobacter pylori AmiF formamidase that hydrolyzes formamide to produce formic acid and ammonia belongs to a member of the nitrilase superfamily. The crystal structure of AmiF was solved to 1.75A resolution using single-wavelength anomalous dispersion methods. The structure consists of a homohexamer related by 3-fold symmetry in which each subunit has an alpha-beta-beta-alpha four-layer architecture characteristic of the nitrilase superfamily. One exterior alpha layer faces the solvent, whereas the other one associates with that of the neighbor subunit, forming a tight alpha-beta-beta-alpha-alpha-beta-beta-alpha dimer. The apo and liganded crystal structures of an inactive mutant C166S were also determined to 2.50 and 2.30 A, respectively. These structures reveal a small formamide-binding pocket that includes Cys(166), Glu(60), and Lys(133) catalytic residues, in which Cys(166) acts as a nucleophile. Analysis of the liganded AmiF and N-carbamoyl d-amino acid amidohydrolase binding pockets reveals a common Cys-Glu-Lys triad, another conserved glutamate, and different subsets of ligand-binding residues. Molecular dynamic simulations show that the conserved triad has minimal fluctuations, catalyzing the hydrolysis of a specific nitrile or amide in the nitrilase superfamily efficiently.

	~~{{STRUCTURE_2e2k\| PDB=2e2k \| SCENE= }}~~		Crystal structure of Helicobacter pylori formamidase AmiF reveals a cysteine-glutamate-lysine catalytic triad.,Hung CL, Liu JH, Chiu WC, Huang SW, Hwang JK, Wang WC J Biol Chem. 2007 Apr 20;282(16):12220-9. Epub 2007 Feb 16. PMID:17307742<ref>PMID:17307742</ref>

	~~===Helicobacter pylori formamidase AmiF contains a fine-tuned cysteine-glutamate-lysine catalytic triad===~~		From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
			</div>
	~~{{ABSTRACT_PUBMED_17307742}}~~		== References ==
			<references/>
	~~==About this Structure==~~		__TOC__
	~~[[2e2k]] is~~ a ~~6 chain structure with sequence from [http://en~~.~~wikipedia~~.~~org/wiki/Helicobacter_pylori Helicobacter pylori]~~. ~~Full crystallographic information is available from [http:~~/~~/oca.weizmann.ac.il/oca-bin/ocashort?id=2E2K OCA].~~		</StructureSection>

	==~~Reference~~==
	<~~ref group="xtra">PMID:017307742<~~/~~ref~~><~~references group="xtra"~~/>
	[[Category: Formamidase]]		[[Category: Formamidase]]
	[[Category: Helicobacter pylori]]		[[Category: Helicobacter pylori]]

OCA: Protected "2e2k" [edit=sysop:move=sysop]

2013-01-06T10:10:13Z

Protected "2e2k" [edit=sysop:move=sysop]

← Older revision	Revision as of 10:10, 6 January 2013
(No difference)

OCA at 10:10, 6 January 2013

2013-01-06T10:10:11Z

← Older revision		Revision as of 10:10, 6 January 2013
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	~~{{Seed}}~~
	[[Image:2e2k.png\|left\|200px]]		[[Image:2e2k.png\|left\|200px]]

	~~<!--~~
	~~The line below this paragraph, containing "STRUCTURE_2e2k", creates the "Structure Box" on the page.~~
	~~You may change the PDB parameter (which sets the PDB file loaded into the applet)~~
	~~or the SCENE parameter (which sets the initial scene displayed when the page is loaded),~~
	~~or leave the SCENE parameter empty for the default display.~~
	~~-->~~
	{{STRUCTURE_2e2k\| PDB=2e2k \| SCENE= }}		{{STRUCTURE_2e2k\| PDB=2e2k \| SCENE= }}

	===Helicobacter pylori formamidase AmiF contains a fine-tuned cysteine-glutamate-lysine catalytic triad===		===Helicobacter pylori formamidase AmiF contains a fine-tuned cysteine-glutamate-lysine catalytic triad===


	~~<!--~~
	~~The line below this paragraph, {{ABSTRACT_PUBMED_17307742}}, adds the Publication Abstract to the page~~
	~~(as it appears on PubMed at http://www.pubmed.gov), where 17307742 is the PubMed ID number.~~
	~~-->~~
	{{ABSTRACT_PUBMED_17307742}}		{{ABSTRACT_PUBMED_17307742}}

	==About this Structure==		==About this Structure==
	~~2E2K~~ is a 6 ~~chains~~ structure ~~of sequences~~ from [http://en.wikipedia.org/wiki/~~Helicobacter_pylori_26695~~ Helicobacter pylori ~~26695~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2E2K OCA].		[[2e2k]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/Helicobacter_pylori Helicobacter pylori]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2E2K OCA].

	==Reference==		==Reference==
	<ref group="xtra">PMID:~~17307742~~</ref><references group="xtra"/>		<ref group="xtra">PMID:017307742</ref><references group="xtra"/>
	[[Category: Formamidase]]		[[Category: Formamidase]]
	[[Category: Helicobacter pylori ~~26695~~]]		[[Category: Helicobacter pylori]]
	[[Category: Hung, C L.]]		[[Category: Hung, C L.]]
	[[Category: Wang, W C.]]		[[Category: Wang, W C.]]
Line 36:		Line 24:
	[[Category: Helicobacter pylori]]		[[Category: Helicobacter pylori]]
	[[Category: Hydrolase]]		[[Category: Hydrolase]]

	~~''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Feb 17 15:24:25 2009''~~

OCA at 13:24, 17 February 2009

2009-02-17T13:24:26Z

← Older revision		Revision as of 13:24, 17 February 2009
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	==About this Structure==		==About this Structure==
	2E2K is a ~~[[Single protein]]~~ structure of ~~sequence~~ from [http://en.wikipedia.org/wiki/Helicobacter_pylori_26695 Helicobacter pylori 26695]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2E2K OCA].		2E2K is a 6 chains structure of sequences from [http://en.wikipedia.org/wiki/Helicobacter_pylori_26695 Helicobacter pylori 26695]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2E2K OCA].

	==Reference==		==Reference==
	Crystal structure of Helicobacter pylori formamidase AmiF reveals a cysteine-glutamate-lysine catalytic triad., Hung CL, Liu JH, Chiu WC, Huang SW, Hwang JK, Wang WC, J Biol Chem. 2007 Apr 20;282(16):12220-9. Epub 2007 Feb 16. PMID:~~[http:~~//~~www.ncbi.nlm.nih.gov/pubmed/17307742 17307742]~~		<ref group="xtra">PMID:17307742</ref><references group="xtra"/>
	[[Category: Formamidase]]		[[Category: Formamidase]]
	[[Category: Helicobacter pylori 26695]]		[[Category: Helicobacter pylori 26695]]
	~~[[Category: Single protein]]~~
	[[Category: Hung, C L.]]		[[Category: Hung, C L.]]
	[[Category: Wang, W C.]]		[[Category: Wang, W C.]]
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	[[Category: Hydrolase]]		[[Category: Hydrolase]]

	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on ~~Mon Jul 28 21~~:02:~~52 2008~~''		''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Feb 17 15:24:25 2009''