6k26 - Revision history

OCA at 10:25, 22 November 2023

OCA — Wed, 22 Nov 2023 10:25:49 GMT

←Older revision		Revision as of 10:25, 22 November 2023
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	<StructureSection load='6k26' size='340' side='right'caption='[[6k26]], [[Resolution\|resolution]] 1.85Å' scene=''>		<StructureSection load='6k26' size='340' side='right'caption='[[6k26]], [[Resolution\|resolution]] 1.85Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6k26]] is a 2 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~"bacillo_virgola_del_koch"_trevisan_1884 "bacillo virgola del koch" trevisan 1884~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6K26 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=6K26 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6k26]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Vibrio_cholerae Vibrio cholerae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6K26 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6K26 FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=NA:SODIUM+ION'>NA</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]] 1.85Å</td></tr>
-	<tr id='~~gene~~'><td class="sblockLbl"><b>[[~~Gene~~\|~~Gene~~:]]</b></td><td class="sblockDat"~~>map ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&~~id=~~666~~ "~~Bacillo virgola del Koch~~" ~~Trevisan 1884])</td~~><~~/tr>~~	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=NA:SODIUM+ION'>NA</scene></td></tr>
-	~~<tr id~~='~~activity'><td class~~=~~"sblockLbl"><b>Activity~~:~~</b></td><td class="sblockDat"><span class='plainlinks~~'>~~[http://en.wikipedia.org/wiki/Methionyl_aminopeptidase Methionyl aminopeptidase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.4.11.18 3.4.11.18]~~ </~~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=6k26 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6k26 OCA], [https://pdbe.org/6k26 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6k26 RCSB], [https://www.ebi.ac.uk/pdbsum/6k26 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6k26 ProSAT]</span></td></tr>
-	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://proteopedia.org/fgij/fg.htm?mol=6k26 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6k26 OCA], [~~http~~://pdbe.org/6k26 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=6k26 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/6k26 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=6k26 ProSAT]</span></td></tr>	+
	</table>		</table>
	== Function ==		== Function ==
-	[~~[http~~://www.uniprot.org/uniprot/~~A0A085RSZ7_VIBCL A0A085RSZ7_VIBCL]~~] Removes the N-terminal methionine from nascent proteins. The N-terminal methionine is often cleaved when the second residue in the primary sequence is small and uncharged (Met-Ala-, Cys, Gly, Pro, Ser, Thr, or Val). Requires deformylation of the N(alpha)-formylated initiator methionine before it can be hydrolyzed.[ARBA:ARBA00002521][HAMAP-Rule:MF_01974]	+	[https://www.uniprot.org/uniprot/Q9KPV1_VIBCH Q9KPV1_VIBCH] Removes the N-terminal methionine from nascent proteins. The N-terminal methionine is often cleaved when the second residue in the primary sequence is small and uncharged (Met-Ala-, Cys, Gly, Pro, Ser, Thr, or Val). Requires deformylation of the N(alpha)-formylated initiator methionine before it can be hydrolyzed.[ARBA:ARBA00002521][HAMAP-Rule:MF_01974]
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Methionine aminopeptidases (MetAPs) have been recognized as drug targets and have been extensively studied for discovery of selective inhibitors. MetAPs are essential enzymes in all living cells. While most prokaryotes contain a single gene, some prokaryotes and all eukaryotes including human have redundancy. Due to the similarity in the active sites of the MetAP enzyme between the pathogens and human limited the success of discovering selective inhibitors. We recently have discovered that MetAPs with small inserts within the catalytic domain to have different susceptibilities against some inhibitors compared to those that do not have. Using this clue we used bioinformatic tools to identify new variants of MetAPs with inserts in pathogenic species. Two new isoforms were identified in Vibrio species with two and three inserts in addition to an isoform without any insert. Multiple sequence alignment suggested that inserts are conserved in several of the Vibrio species. Two of the three inserts are common between two and three insert isoforms. One of the inserts is identified to have "NNKNN" motif that is similar to well-characterized quorum sensing peptide, "NNWNN". Another insert is predicted to have a posttranslational modification site. Three Vibrio proteins were cloned, expressed, purified, enzyme kinetics established and inhibitor screening has been performed. Several of the pyridinylpyrimidine derivatives selectively inhibited MetAPs with inserts compared to those that do not have, including the human enzyme. Crystal structure and molecular modeling studies provide the molecular basis for selective inhibition.
		+
		+	Methionine aminopeptidases with short sequence inserts within the catalytic domain are differentially inhibited: Structural and biochemical studies of three proteins from Vibrio spp.,Pillalamarri V, Reddy CG, Bala SC, Jangam A, Kutty VV, Addlagatta A Eur J Med Chem. 2021 Jan 1;209:112883. doi: 10.1016/j.ejmech.2020.112883. Epub , 2020 Sep 28. PMID:33035924<ref>PMID:33035924</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 6k26" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
	*[[Aminopeptidase 3D structures\|Aminopeptidase 3D structures]]		*[[Aminopeptidase 3D structures\|Aminopeptidase 3D structures]]
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Bacillo virgola del koch trevisan 1884]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Methionyl aminopeptidase~~]]	+	[[Category: Vibrio cholerae]]
-	[[Category: Addlagatta, A]]	+	[[Category: Addlagatta A]]
-	[[Category: Pillalamarri, V]]	+	[[Category: Pillalamarri V]]
-	~~[[Category: Hydrolase]]~~	+
-	~~[[Category: Metap]]~~	+
-	~~[[Category: Methionine aminopeptidase~~]]	+

OCA at 08:01, 2 December 2020

OCA — Wed, 02 Dec 2020 08:01:30 GMT

←Older revision		Revision as of 08:01, 2 December 2020
Line 1:		Line 1:

	==Crystal structure of Vibrio cholerae methionine aminopeptidase==		==Crystal structure of Vibrio cholerae methionine aminopeptidase==
-	<StructureSection load='6k26' size='340' side='right'caption='[[6k26]]' scene=''>	+	<StructureSection load='6k26' size='340' side='right'caption='[[6k26]], [[Resolution\|resolution]] 1.85Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6K26 OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=6K26 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6k26]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/"bacillo_virgola_del_koch"_trevisan_1884 "bacillo virgola del koch" trevisan 1884]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6K26 OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=6K26 FirstGlance]. <br>
-	</td></tr><tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://proteopedia.org/fgij/fg.htm?mol=6k26 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6k26 OCA], [http://pdbe.org/6k26 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6k26 RCSB], [http://www.ebi.ac.uk/pdbsum/6k26 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6k26 ProSAT]</span></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=NA:SODIUM+ION'>NA</scene></td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">map ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=666 "Bacillo virgola del Koch" Trevisan 1884])</td></tr>
		+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Methionyl_aminopeptidase Methionyl aminopeptidase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.4.11.18 3.4.11.18] </span></td></tr>
		+	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://proteopedia.org/fgij/fg.htm?mol=6k26 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6k26 OCA], [http://pdbe.org/6k26 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6k26 RCSB], [http://www.ebi.ac.uk/pdbsum/6k26 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6k26 ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/A0A085RSZ7_VIBCL A0A085RSZ7_VIBCL]] Removes the N-terminal methionine from nascent proteins. The N-terminal methionine is often cleaved when the second residue in the primary sequence is small and uncharged (Met-Ala-, Cys, Gly, Pro, Ser, Thr, or Val). Requires deformylation of the N(alpha)-formylated initiator methionine before it can be hydrolyzed.[ARBA:ARBA00002521][HAMAP-Rule:MF_01974]
		+
		+	==See Also==
		+	*[[Aminopeptidase 3D structures\|Aminopeptidase 3D structures]]
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Bacillo virgola del koch trevisan 1884]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Addlagatta A]]	+	[[Category: Methionyl aminopeptidase]]
-	[[Category: Pillalamarri V]]	+	[[Category: Addlagatta, A]]
		+	[[Category: Pillalamarri, V]]
		+	[[Category: Hydrolase]]
		+	[[Category: Metap]]
		+	[[Category: Methionine aminopeptidase]]

OCA at 05:43, 20 May 2020

OCA — Wed, 20 May 2020 05:43:42 GMT

←Older revision		Revision as of 05:43, 20 May 2020
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-	'''Unreleased structure'''

-	~~The entry~~ 6k26 ~~is ON HOLD until Paper Publication~~	+	==Crystal structure of Vibrio cholerae methionine aminopeptidase==
-		+	<StructureSection load='6k26' size='340' side='right'caption='[[6k26]]' scene=''>
-	~~Authors~~: ~~Pillalamarri~~, V., ~~Addlagatta~~, A.	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6K26 OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=6K26 FirstGlance]. <br>
-	~~Description: Crystal structure of Vibrio cholerae methionine aminopeptidase~~	+	</td></tr><tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://proteopedia.org/fgij/fg.htm?mol=6k26 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6k26 OCA], [http://pdbe.org/6k26 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6k26 RCSB], [http://www.ebi.ac.uk/pdbsum/6k26 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6k26 ProSAT]</span></td></tr>
-	[[Category: ~~Unreleased~~ Structures]]	+	</table>
-	[[Category: ~~Pillalamarri, V~~]]	+	__TOC__
-	[[Category: ~~Addlagatta, A~~]]	+	</StructureSection>
		+	[[Category: Large Structures]]
		+	[[Category: Addlagatta A]]
		+	[[Category: Pillalamarri V]]

OCA at 20:57, 5 June 2019

OCA — Wed, 05 Jun 2019 20:57:37 GMT

←Older revision		Revision as of 20:57, 5 June 2019
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 6k26 is ON HOLD	+	The entry 6k26 is ON HOLD until Paper Publication

	Authors: Pillalamarri, V., Addlagatta, A.		Authors: Pillalamarri, V., Addlagatta, A.

OCA at 04:24, 29 May 2019

OCA — Wed, 29 May 2019 04:24:11 GMT

←Older revision		Revision as of 04:24, 29 May 2019
Line 5:		Line 5:
	Authors: Pillalamarri, V., Addlagatta, A.		Authors: Pillalamarri, V., Addlagatta, A.

-	Description: Crystal structure of ~~vibrio~~ cholerae methionine ~~aminopeptida~~	+	Description: Crystal structure of Vibrio cholerae methionine aminopeptidase
	[[Category: Unreleased Structures]]		[[Category: Unreleased Structures]]
-	[[Category: Addlagatta, A]]
	[[Category: Pillalamarri, V]]		[[Category: Pillalamarri, V]]
		+	[[Category: Addlagatta, A]]

OCA: Protected "6k26" [edit=sysop:move=sysop]

OCA — Wed, 22 May 2019 03:54:38 GMT

Protected "6k26" [edit=sysop:move=sysop]

←Older revision

Revision as of 03:54, 22 May 2019

OCA: New page: '''Unreleased structure''' The entry 6k26 is ON HOLD Authors: Pillalamarri, V., Addlagatta, A. Description: Crystal structure of vibrio cholerae methionine aminopeptida [[Category: Unr...

OCA — Wed, 22 May 2019 03:54:37 GMT

New page: '''Unreleased structure''' The entry 6k26 is ON HOLD Authors: Pillalamarri, V., Addlagatta, A. Description: Crystal structure of vibrio cholerae methionine aminopeptida [[Category: Unr...

New page

'''Unreleased structure'''

The entry 6k26 is ON HOLD

Authors: Pillalamarri, V., Addlagatta, A.

Description: Crystal structure of vibrio cholerae methionine aminopeptida
[[Category: Unreleased Structures]]
[[Category: Addlagatta, A]]
[[Category: Pillalamarri, V]]