4ypv - Revision history

OCA at 08:03, 27 September 2023

OCA — Wed, 27 Sep 2023 08:03:38 GMT

←Older revision		Revision as of 08:03, 27 September 2023
Line 4:		Line 4:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[4ypv]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Parvibaculum Parvibaculum]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4YPV OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4YPV FirstGlance]. <br>		<table><tr><td colspan='2'>[[4ypv]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Parvibaculum Parvibaculum]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4YPV OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4YPV FirstGlance]. <br>
-	</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=4ypv FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4ypv OCA], [https://pdbe.org/4ypv PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4ypv RCSB], [https://www.ebi.ac.uk/pdbsum/4ypv PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4ypv ProSAT]</span></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='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=4ypv FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4ypv OCA], [https://pdbe.org/4ypv PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4ypv RCSB], [https://www.ebi.ac.uk/pdbsum/4ypv PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4ypv ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 08:25, 3 May 2023

OCA — Wed, 03 May 2023 08:25:13 GMT

←Older revision		Revision as of 08:25, 3 May 2023
Line 3:		Line 3:
	<StructureSection load='4ypv' size='340' side='right'caption='[[4ypv]], [[Resolution\|resolution]] 1.85Å' scene=''>		<StructureSection load='4ypv' size='340' side='right'caption='[[4ypv]], [[Resolution\|resolution]] 1.85Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4ypv]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Parvibaculum Parvibaculum]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4YPV OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=4YPV FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4ypv]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Parvibaculum Parvibaculum]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4YPV OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4YPV FirstGlance]. <br>
-	</td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">est8 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=256616 Parvibaculum])</td></tr>	+	</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=4ypv FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4ypv OCA], [https://pdbe.org/4ypv PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4ypv RCSB], [https://www.ebi.ac.uk/pdbsum/4ypv PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4ypv ProSAT]</span></td></tr>
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Carboxylesterase Carboxylesterase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.1.1.1 3.1.1.1] </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=4ypv FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4ypv OCA], [~~http~~://pdbe.org/4ypv PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=4ypv RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/4ypv PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=4ypv ProSAT]</span></td></tr>	+
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
Line 21:		Line 19:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Carboxylesterase]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
	[[Category: Parvibaculum]]		[[Category: Parvibaculum]]
-	[[Category: Balan, A]]	+	[[Category: Balan A]]
-	[[Category: Hyvonen, M]]	+	[[Category: Hyvonen M]]
-	[[Category: Lemos, E ~~Macedo~~]]	+	[[Category: Macedo Lemos E]]
-	[[Category: Maester~~, C T~~]]	+	[[Category: Maester CT]]
-	[[Category: Pereira~~, M R]]~~	+	[[Category: Pereira MR]]
-	~~[[Category: Est8]]~~	+
-	~~[[Category: Esterase]]~~	+
-	~~[[Category: Hydrolase]]~~	+
-	~~[[Category: Metagenome]]~~	+
-	~~[[Category: Microbial consortium~~]]	+

OCA at 06:18, 17 April 2019

OCA — Wed, 17 Apr 2019 06:18:31 GMT

←Older revision		Revision as of 06:18, 17 April 2019
Line 1:		Line 1:

	==High-resolution structure of a metagenome-derived esterase Est8==		==High-resolution structure of a metagenome-derived esterase Est8==
-	<StructureSection load='4ypv' size='340' side='right' caption='[[4ypv]], [[Resolution\|resolution]] 1.85Å' scene=''>	+	<StructureSection load='4ypv' size='340' side='right'caption='[[4ypv]], [[Resolution\|resolution]] 1.85Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4ypv]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4YPV OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4YPV FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4ypv]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Parvibaculum Parvibaculum]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4YPV OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4YPV FirstGlance]. <br>
-	</td></tr><tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Carboxylesterase Carboxylesterase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.1.1.1 3.1.1.1] </span></td></tr>	+	</td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">est8 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=256616 Parvibaculum])</td></tr>
		+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Carboxylesterase Carboxylesterase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.1.1.1 3.1.1.1] </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=4ypv FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4ypv OCA], [http://pdbe.org/4ypv PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4ypv RCSB], [http://www.ebi.ac.uk/pdbsum/4ypv PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4ypv ProSAT]</span></td></tr>		<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4ypv FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4ypv OCA], [http://pdbe.org/4ypv PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4ypv RCSB], [http://www.ebi.ac.uk/pdbsum/4ypv PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4ypv ProSAT]</span></td></tr>
	</table>		</table>
Line 21:		Line 22:
	</StructureSection>		</StructureSection>
	[[Category: Carboxylesterase]]		[[Category: Carboxylesterase]]
		+	[[Category: Large Structures]]
		+	[[Category: Parvibaculum]]
	[[Category: Balan, A]]		[[Category: Balan, A]]
	[[Category: Hyvonen, M]]		[[Category: Hyvonen, M]]

OCA at 07:37, 27 April 2017

OCA — Thu, 27 Apr 2017 07:37:22 GMT

←Older revision		Revision as of 07:37, 27 April 2017
Line 5:		Line 5:
	<table><tr><td colspan='2'>[[4ypv]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4YPV OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4YPV FirstGlance]. <br>		<table><tr><td colspan='2'>[[4ypv]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4YPV OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4YPV FirstGlance]. <br>
	</td></tr><tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Carboxylesterase Carboxylesterase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.1.1.1 3.1.1.1] </span></td></tr>		</td></tr><tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Carboxylesterase Carboxylesterase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.1.1.1 3.1.1.1] </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=4ypv FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4ypv OCA], [http://pdbe.org/4ypv PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4ypv RCSB], [http://www.ebi.ac.uk/pdbsum/4ypv 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=4ypv FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4ypv OCA], [http://pdbe.org/4ypv PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4ypv RCSB], [http://www.ebi.ac.uk/pdbsum/4ypv PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4ypv ProSAT]</span></td></tr>
	</table>		</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Esterases catalyze the cleavage and formation of ester bonds and are members of the diverse family of alpha/beta hydrolase fold. They are useful in industries from different sectors, such as food, detergent, fine chemicals, and biofuel production. In a previous work, 30 positive clones for lipolytic activity were identified from a metagenomic library of a microbial consortium specialized in diesel oil degradation. In this study, a putative gene encoding an esterase/lipase, denominated est8, has been cloned and the corresponding protein expressed recombinantly, purified to homogeneity and characterized functional and structurally. We show that the protein codified by est8 gene, denominated Est8, is an alkaline esterase with high catalytic efficiency against p-nitrophenyl acetate and stable in the presence of up to 10% dimethyl sulfoxide. The three-dimensional structure of Est8 was determined at 1.85-A resolution, allowing the characterization of the substrate-binding pocket and features that rationalize the preference of Est8 for short-chain substrates. In an attempt to increase the size of ligand-binding pocket and enzyme activity against distinct substrates of long chain, we mutated two residues (Met213 and Phe217) that block the substrate channel. A small increase in the reaction velocity for p-nitrophenyl butyrate and p-nitrophenyl valerate hydrolysis was observed. Activity against p-nitrophenyl acetate was reduced. The functional and structural characterization of Est8 is explored in comparison with orthologues.
		+
		+	From a metagenomic source to a high-resolution structure of a novel alkaline esterase.,Pereira MR, Maester TC, Mercaldi GF, de Macedo Lemos EG, Hyvonen M, Balan A Appl Microbiol Biotechnol. 2017 Mar 22. doi: 10.1007/s00253-017-8226-4. PMID:28331945<ref>PMID:28331945</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 4ypv" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>

OCA at 15:47, 1 June 2016

OCA — Wed, 01 Jun 2016 15:47:09 GMT

←Older revision		Revision as of 15:47, 1 June 2016
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 4ypv ~~is ON HOLD until Paper Publication~~	+	==High-resolution structure of a metagenome-derived esterase Est8==
-		+	<StructureSection load='4ypv' size='340' side='right' caption='[[4ypv]], [[Resolution\|resolution]] 1.85Å' scene=''>
-	~~Authors~~: ~~Pereira~~, M.R., ~~Maester, C~~.T., ~~Macedo Lemos, E~~., ~~Hyvonen, M~~., ~~Balan, A~~.	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>[[4ypv]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4YPV OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4YPV FirstGlance]. <br>
-	~~Description~~: ~~High-resolution structure of a metagenome-derived esterase Est8~~	+	</td></tr><tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Carboxylesterase Carboxylesterase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.1.1.1 3.1.1.1] </span></td></tr>
-	[[Category: ~~Unreleased Structures~~]]	+	<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=4ypv FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4ypv OCA], [http://pdbe.org/4ypv PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4ypv RCSB], [http://www.ebi.ac.uk/pdbsum/4ypv PDBsum]</span></td></tr>
		+	</table>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Carboxylesterase]]
		+	[[Category: Balan, A]]
	[[Category: Hyvonen, M]]		[[Category: Hyvonen, M]]
-	[[Category: ~~Macedo~~ Lemos, E]]	+	[[Category: Lemos, E Macedo]]
-	[[Category: ~~Balan~~, A]]	+	[[Category: Maester, C T]]
-	[[Category: ~~Maester~~, ~~C.T~~]]	+	[[Category: Pereira, M R]]
-	[[Category: ~~Pereira, M.R~~]]	+	[[Category: Est8]]
		+	[[Category: Esterase]]
		+	[[Category: Hydrolase]]
		+	[[Category: Metagenome]]
		+	[[Category: Microbial consortium]]

OCA at 23:41, 30 November 2015

OCA — Mon, 30 Nov 2015 23:41:06 GMT

←Older revision		Revision as of 23:41, 30 November 2015
Line 8:		Line 8:
	[[Category: Unreleased Structures]]		[[Category: Unreleased Structures]]
	[[Category: Hyvonen, M]]		[[Category: Hyvonen, M]]
-	[[Category: Maester, C.T]]
-	[[Category: Pereira, M.R]]
	[[Category: Macedo Lemos, E]]		[[Category: Macedo Lemos, E]]
	[[Category: Balan, A]]		[[Category: Balan, A]]
		+	[[Category: Maester, C.T]]
		+	[[Category: Pereira, M.R]]

OCA at 11:15, 15 April 2015

OCA — Wed, 15 Apr 2015 11:15:23 GMT

←Older revision		Revision as of 11:15, 15 April 2015
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

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

	Authors: Pereira, M.R., Maester, C.T., Macedo Lemos, E., Hyvonen, M., Balan, A.		Authors: Pereira, M.R., Maester, C.T., Macedo Lemos, E., Hyvonen, M., Balan, A.

OCA at 09:43, 8 April 2015

OCA — Wed, 08 Apr 2015 09:43:01 GMT

←Older revision		Revision as of 09:43, 8 April 2015
Line 5:		Line 5:
	Authors: Pereira, M.R., Maester, C.T., Macedo Lemos, E., Hyvonen, M., Balan, A.		Authors: Pereira, M.R., Maester, C.T., Macedo Lemos, E., Hyvonen, M., Balan, A.

-	Description: High-resolution of ~~an esterase Est8~~ metagenome-derived	+	Description: High-resolution structure of a metagenome-derived esterase Est8
	[[Category: Unreleased Structures]]		[[Category: Unreleased Structures]]
	[[Category: Hyvonen, M]]		[[Category: Hyvonen, M]]

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

OCA — Thu, 26 Mar 2015 12:41:08 GMT

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

←Older revision

Revision as of 12:41, 26 March 2015

OCA: New page: '''Unreleased structure''' The entry 4ypv is ON HOLD Authors: Pereira, M.R., Maester, C.T., Macedo Lemos, E., Hyvonen, M., Balan, A. Description: High-resolution of an esterase Est8 me...

OCA — Thu, 26 Mar 2015 12:41:06 GMT

New page: '''Unreleased structure''' The entry 4ypv is ON HOLD Authors: Pereira, M.R., Maester, C.T., Macedo Lemos, E., Hyvonen, M., Balan, A. Description: High-resolution of an esterase Est8 me...

New page

'''Unreleased structure'''

The entry 4ypv is ON HOLD

Authors: Pereira, M.R., Maester, C.T., Macedo Lemos, E., Hyvonen, M., Balan, A.

Description: High-resolution of an esterase Est8 metagenome-derived
[[Category: Unreleased Structures]]
[[Category: Hyvonen, M]]
[[Category: Maester, C.T]]
[[Category: Pereira, M.R]]
[[Category: Macedo Lemos, E]]
[[Category: Balan, A]]