4zla - Revision history

OCA at 08:20, 27 September 2023

OCA — Wed, 27 Sep 2023 08:20:17 GMT

←Older revision		Revision as of 08:20, 27 September 2023
Line 4:		Line 4:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[4zla]] 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=4ZLA OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4ZLA FirstGlance]. <br>		<table><tr><td colspan='2'>[[4zla]] 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=4ZLA OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4ZLA FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=BCT:BICARBONATE+ION'>BCT</scene>, <scene name='pdbligand=BES:2-(3-AMINO-2-HYDROXY-4-PHENYL-BUTYRYLAMINO)-4-METHYL-PENTANOIC+ACID'>BES</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</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]] 1.9Å</td></tr>
		+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=BCT:BICARBONATE+ION'>BCT</scene>, <scene name='pdbligand=BES:2-(3-AMINO-2-HYDROXY-4-PHENYL-BUTYRYLAMINO)-4-METHYL-PENTANOIC+ACID'>BES</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</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=4zla FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4zla OCA], [https://pdbe.org/4zla PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4zla RCSB], [https://www.ebi.ac.uk/pdbsum/4zla PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4zla 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=4zla FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4zla OCA], [https://pdbe.org/4zla PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4zla RCSB], [https://www.ebi.ac.uk/pdbsum/4zla PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4zla ProSAT]</span></td></tr>
	</table>		</table>

OCA at 07:32, 18 May 2023

OCA — Thu, 18 May 2023 07:32:14 GMT

←Older revision		Revision as of 07:32, 18 May 2023
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	<StructureSection load='4zla' size='340' side='right'caption='[[4zla]], [[Resolution\|resolution]] 1.90Å' scene=''>		<StructureSection load='4zla' size='340' side='right'caption='[[4zla]], [[Resolution\|resolution]] 1.90Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4zla]] 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=4ZLA OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=4ZLA FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4zla]] 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=4ZLA OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4ZLA FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=BCT:BICARBONATE+ION'>BCT</scene>, <scene name='pdbligand=BES:2-(3-AMINO-2-HYDROXY-4-PHENYL-BUTYRYLAMINO)-4-METHYL-PENTANOIC+ACID'>BES</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene>~~</td></tr>~~	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=BCT:BICARBONATE+ION'>BCT</scene>, <scene name='pdbligand=BES:2-(3-AMINO-2-HYDROXY-4-PHENYL-BUTYRYLAMINO)-4-METHYL-PENTANOIC+ACID'>BES</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
-	~~<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4zi6\|4zi6]]</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=4zla FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4zla OCA], [https://pdbe.org/4zla PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4zla RCSB], [https://www.ebi.ac.uk/pdbsum/4zla PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4zla ProSAT]</span></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">pepA, HP_0570 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=85962 Campylobacter pylori])</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=4zla FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4zla OCA], [~~http~~://pdbe.org/4zla PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=4zla RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/4zla PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=4zla ProSAT]</span></td></tr>	+
	</table>		</table>
	== Function ==		== Function ==
-	[~~[http~~://www.uniprot.org/uniprot/AMPA_HELPY AMPA_HELPY]] Presumably involved in the processing and regular turnover of intracellular proteins. Catalyzes the removal of unsubstituted N-terminal amino acids from various peptides (By similarity).	+	[https://www.uniprot.org/uniprot/AMPA_HELPY AMPA_HELPY] Presumably involved in the processing and regular turnover of intracellular proteins. Catalyzes the removal of unsubstituted N-terminal amino acids from various peptides (By similarity).
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 27:		Line 25:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Campylobacter~~ pylori]]	+	[[Category: Helicobacter pylori 26695]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Modak~~, J K~~]]	+	[[Category: Modak JK]]
-	[[Category: Roujeinikova, A]]	+	[[Category: Roujeinikova A]]
-	~~[[Category: Bestatin]]~~	+
-	~~[[Category: Cytosol]]~~	+
-	~~[[Category: Hydrolase]]~~	+
-	~~[[Category: Hydrolase-hydrolase inhibitor complex]]~~	+
-	~~[[Category: Leucine aminopeptidase~~]]	+

OCA at 08:27, 26 June 2019

OCA — Wed, 26 Jun 2019 08:27:31 GMT

←Older revision		Revision as of 08:27, 26 June 2019
Line 1:		Line 1:
		+
	==Bestatin complex structure of leucine aminopeptidase from Helicobacter pylori==		==Bestatin complex structure of leucine aminopeptidase from Helicobacter pylori==
-	<StructureSection load='4zla' size='340' side='right' caption='[[4zla]], [[Resolution\|resolution]] 1.90Å' scene=''>	+	<StructureSection load='4zla' size='340' side='right'caption='[[4zla]], [[Resolution\|resolution]] 1.90Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4zla]] is a 6 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4ZLA OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4ZLA FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4zla]] 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=4ZLA OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4ZLA FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=BCT:BICARBONATE+ION'>BCT</scene>, <scene name='pdbligand=BES:2-(3-AMINO-2-HYDROXY-4-PHENYL-BUTYRYLAMINO)-4-METHYL-PENTANOIC+ACID'>BES</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=BCT:BICARBONATE+ION'>BCT</scene>, <scene name='pdbligand=BES:2-(3-AMINO-2-HYDROXY-4-PHENYL-BUTYRYLAMINO)-4-METHYL-PENTANOIC+ACID'>BES</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4zi6\|4zi6]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4zi6\|4zi6]]</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=4zla FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4zla OCA], [http://pdbe.org/4zla PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4zla RCSB], [http://www.ebi.ac.uk/pdbsum/4zla PDBsum]</span></td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">pepA, HP_0570 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=85962 Campylobacter pylori])</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=4zla FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4zla OCA], [http://pdbe.org/4zla PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4zla RCSB], [http://www.ebi.ac.uk/pdbsum/4zla PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4zla ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 18:		Line 20:
	</div>		</div>
	<div class="pdbe-citations 4zla" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 4zla" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Aminopeptidase 3D structures\|Aminopeptidase 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Campylobacter pylori]]
		+	[[Category: Large Structures]]
	[[Category: Modak, J K]]		[[Category: Modak, J K]]
	[[Category: Roujeinikova, A]]		[[Category: Roujeinikova, A]]

OCA at 12:39, 23 December 2015

OCA — Wed, 23 Dec 2015 12:39:00 GMT

←Older revision		Revision as of 12:39, 23 December 2015
Line 1:		Line 1:
-	'''~~Unreleased~~ structure'''	+	==Bestatin complex structure of leucine aminopeptidase from Helicobacter pylori==
		+	<StructureSection load='4zla' size='340' side='right' caption='[[4zla]], [[Resolution\|resolution]] 1.90Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[4zla]] is a 6 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4ZLA OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4ZLA FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=BCT:BICARBONATE+ION'>BCT</scene>, <scene name='pdbligand=BES:2-(3-AMINO-2-HYDROXY-4-PHENYL-BUTYRYLAMINO)-4-METHYL-PENTANOIC+ACID'>BES</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
		+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4zi6\|4zi6]]</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=4zla FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4zla OCA], [http://pdbe.org/4zla PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4zla RCSB], [http://www.ebi.ac.uk/pdbsum/4zla PDBsum]</span></td></tr>
		+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/AMPA_HELPY AMPA_HELPY]] Presumably involved in the processing and regular turnover of intracellular proteins. Catalyzes the removal of unsubstituted N-terminal amino acids from various peptides (By similarity).
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	The M17 aminopeptidase from the carcinogenic gastric bacterium Helicobacter pylori (HpM17AP) is an important housekeeping enzyme involved in catabolism of endogenous and exogenous peptides. It is implicated in H. pylori defence against the human innate immune response and in the mechanism of metronidazole resistance. Bestatin inhibits HpM17AP and suppresses H. pylori growth. To address the structural basis of catalysis and inhibition of this enzyme, we have established its specificity towards the N-terminal amino acid of peptide substrates and determined the crystal structures of HpM17AP and its complex with bestatin. The position of the d-phenylalanine moiety of the inhibitor with respect to the active-site metal ions, bicarbonate ion and with respect to other M17 aminopeptidases suggested that this residue binds to the S1 subsite of HpM17AP. In contrast to most characterized M17 aminopeptidases, HpM17AP displays preference for L-Arg over L-Leu residues in peptide substrates. Compared to very similar homologues from other bacteria, a distinguishing feature of HpM17AP is a hydrophilic pocket at the end of the S1 subsite that is likely to accommodate the charged head group of the L-Arg residue of the substrate. The pocket is flanked by a sodium ion (not present in M17 aminopeptidases that show preference for L-Leu) and its coordinating water molecules. In addition, the structure suggests that variable loops at the entrance to, and in the middle of, the substrate-binding channel are important determinants of substrate specificity of M17 aminopeptidases.

-	~~The entry 4zla is ON HOLD until Paper Publication~~	+	Structural basis for substrate specificity of Helicobacter pylori M17 aminopeptidase.,Modak JK, Rut W, Wijeyewickrema LC, Pike RN, Drag M, Roujeinikova A Biochimie. 2015 Nov 24. pii: S0300-9084(15)00378-8. doi:, 10.1016/j.biochi.2015.11.021. PMID:26616008<ref>PMID:26616008</ref>

-	~~Authors: Modak~~, J.K.~~, Roujeinikova, A~~.	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~Description~~: ~~Bestatin complex structure of leucine aminopeptidase from Helicobacter pylori~~	+	<div class="pdbe-citations 4zla" style="background-color:#fffaf0;"></div>
-	[[Category: ~~Unreleased Structures~~]]	+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Modak, J K]]
	[[Category: Roujeinikova, A]]		[[Category: Roujeinikova, A]]
-	[[Category: ~~Modak, J.K~~]]	+	[[Category: Bestatin]]
		+	[[Category: Cytosol]]
		+	[[Category: Hydrolase]]
		+	[[Category: Hydrolase-hydrolase inhibitor complex]]
		+	[[Category: Leucine aminopeptidase]]

OCA at 00:04, 1 December 2015

OCA — Tue, 01 Dec 2015 00:04:26 GMT

←Older revision		Revision as of 00:04, 1 December 2015
Line 7:		Line 7:
	Description: Bestatin complex structure of leucine aminopeptidase from Helicobacter pylori		Description: Bestatin complex structure of leucine aminopeptidase from Helicobacter pylori
	[[Category: Unreleased Structures]]		[[Category: Unreleased Structures]]
-	[[Category: Modak, J.K]]
	[[Category: Roujeinikova, A]]		[[Category: Roujeinikova, A]]
		+	[[Category: Modak, J.K]]

OCA at 10:58, 3 June 2015

OCA — Wed, 03 Jun 2015 10:58:45 GMT

←Older revision		Revision as of 10:58, 3 June 2015
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

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

	Authors: Modak, J.K., Roujeinikova, A.		Authors: Modak, J.K., Roujeinikova, A.

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

OCA — Wed, 06 May 2015 11:54:53 GMT

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

←Older revision

Revision as of 11:54, 6 May 2015

OCA: New page: '''Unreleased structure''' The entry 4zla is ON HOLD Authors: Modak, J.K., Roujeinikova, A. Description: Bestatin complex structure of leucine aminopeptidase from Helicobacter pylori [...

OCA — Wed, 06 May 2015 11:54:51 GMT

New page: '''Unreleased structure''' The entry 4zla is ON HOLD Authors: Modak, J.K., Roujeinikova, A. Description: Bestatin complex structure of leucine aminopeptidase from Helicobacter pylori [...

New page

'''Unreleased structure'''

The entry 4zla is ON HOLD

Authors: Modak, J.K., Roujeinikova, A.

Description: Bestatin complex structure of leucine aminopeptidase from Helicobacter pylori
[[Category: Unreleased Structures]]
[[Category: Modak, J.K]]
[[Category: Roujeinikova, A]]