4wfi - Revision history

OCA at 07:06, 7 April 2023

OCA — Fri, 07 Apr 2023 07:06:33 GMT

←Older revision		Revision as of 07:06, 7 April 2023
Line 3:		Line 3:
	<StructureSection load='4wfi' size='340' side='right'caption='[[4wfi]], [[Resolution\|resolution]] 1.45Å' scene=''>		<StructureSection load='4wfi' size='340' side='right'caption='[[4wfi]], [[Resolution\|resolution]] 1.45Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4wfi]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~"saccharomonospora_internatus"_(agre_et_al._1974)_greiner-mai_et_al._1988 "saccharomonospora internatus" (agre et al. 1974) greiner-mai et al. 1988~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4WFI OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=4WFI FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4wfi]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Saccharomonospora_viridis Saccharomonospora viridis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4WFI OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4WFI FirstGlance]. <br>
-	</td></tr>~~<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4wfj\|4wfj]], [[4wfk\|4wfk]]</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=4wfi FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4wfi OCA], [https://pdbe.org/4wfi PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4wfi RCSB], [https://www.ebi.ac.uk/pdbsum/4wfi PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4wfi ProSAT]</span></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Cut190 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1852 "Saccharomonospora internatus" (Agre et al. 1974) Greiner-Mai et al. 1988])</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=4wfi FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4wfi OCA], [~~http~~://pdbe.org/4wfi PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=4wfi RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/4wfi PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=4wfi ProSAT]</span></td></tr>	+
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/W0TJ64_9PSEU W0TJ64_9PSEU]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 25:		Line 25:
	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Kawai, F]]	+	[[Category: Saccharomonospora viridis]]
-	[[Category: Miyakawa, T]]	+	[[Category: Kawai F]]
-	[[Category: Mizushima, H]]	+	[[Category: Miyakawa T]]
-	[[Category: Oda, M]]	+	[[Category: Mizushima H]]
-	[[Category: Ohtsuka, J]]	+	[[Category: Oda M]]
-	[[Category: Tanokura, M]]	+	[[Category: Ohtsuka J]]
-	~~[[Category: Alpha/beta-hydrolase fold]]~~	+	[[Category: Tanokura M]]
-	~~[[Category: Cutinase]]~~	+
-	~~[[Category: Hydrolase]]~~	+
-	~~[[Category: Polyesterase~~]]	+

OCA at 08:37, 23 May 2019

OCA — Thu, 23 May 2019 08:37:53 GMT

←Older revision		Revision as of 08:37, 23 May 2019
Line 1:		Line 1:

	==Crystal structure of PET-degrading cutinase Cut190 S226P mutant in Ca(2+)-free state==		==Crystal structure of PET-degrading cutinase Cut190 S226P mutant in Ca(2+)-free state==
-	<StructureSection load='4wfi' size='340' side='right' caption='[[4wfi]], [[Resolution\|resolution]] 1.45Å' scene=''>	+	<StructureSection load='4wfi' size='340' side='right'caption='[[4wfi]], [[Resolution\|resolution]] 1.45Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4wfi]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4WFI OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4WFI FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4wfi]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/"saccharomonospora_internatus"_(agre_et_al._1974)_greiner-mai_et_al._1988 "saccharomonospora internatus" (agre et al. 1974) greiner-mai et al. 1988]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4WFI OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4WFI FirstGlance]. <br>
	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4wfj\|4wfj]], [[4wfk\|4wfk]]</td></tr>		</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4wfj\|4wfj]], [[4wfk\|4wfk]]</td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Cut190 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1852 "Saccharomonospora internatus" (Agre et al. 1974) Greiner-Mai et al. 1988])</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=4wfi FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4wfi OCA], [http://pdbe.org/4wfi PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4wfi RCSB], [http://www.ebi.ac.uk/pdbsum/4wfi PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4wfi 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=4wfi FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4wfi OCA], [http://pdbe.org/4wfi PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4wfi RCSB], [http://www.ebi.ac.uk/pdbsum/4wfi PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4wfi ProSAT]</span></td></tr>
	</table>		</table>
Line 18:		Line 19:

	==See Also==		==See Also==
-	*[[Cutinase\|Cutinase]]	+	*[[Cutinase 3D structures\|Cutinase 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Large Structures]]
	[[Category: Kawai, F]]		[[Category: Kawai, F]]
	[[Category: Miyakawa, T]]		[[Category: Miyakawa, T]]

OCA at 01:45, 10 March 2017

OCA — Fri, 10 Mar 2017 01:45:22 GMT

←Older revision		Revision as of 01:45, 10 March 2017
Line 1:		Line 1:
		+
	==Crystal structure of PET-degrading cutinase Cut190 S226P mutant in Ca(2+)-free state==		==Crystal structure of PET-degrading cutinase Cut190 S226P mutant in Ca(2+)-free state==
	<StructureSection load='4wfi' size='340' side='right' caption='[[4wfi]], [[Resolution\|resolution]] 1.45Å' scene=''>		<StructureSection load='4wfi' size='340' side='right' caption='[[4wfi]], [[Resolution\|resolution]] 1.45Å' scene=''>
Line 4:		Line 5:
	<table><tr><td colspan='2'>[[4wfi]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4WFI OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4WFI FirstGlance]. <br>		<table><tr><td colspan='2'>[[4wfi]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4WFI OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4WFI FirstGlance]. <br>
	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4wfj\|4wfj]], [[4wfk\|4wfk]]</td></tr>		</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4wfj\|4wfj]], [[4wfk\|4wfk]]</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=4wfi FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4wfi OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4wfi RCSB], [http://www.ebi.ac.uk/pdbsum/4wfi 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=4wfi FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4wfi OCA], [http://pdbe.org/4wfi PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4wfi RCSB], [http://www.ebi.ac.uk/pdbsum/4wfi PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4wfi ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
Line 14:		Line 15:
	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 4wfi" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==

OCA at 06:20, 20 May 2015

OCA — Wed, 20 May 2015 06:20:29 GMT

←Older revision		Revision as of 06:20, 20 May 2015
Line 14:		Line 14:
	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>
		+
		+	==See Also==
		+	*[[Cutinase\|Cutinase]]
	== References ==		== References ==
	<references/>		<references/>

OCA at 07:22, 14 January 2015

OCA — Wed, 14 Jan 2015 07:22:26 GMT

←Older revision		Revision as of 07:22, 14 January 2015
Line 1:		Line 1:
-	==Crystal ~~strucrure~~ of PET-degrading cutinase Cut190 S226P mutant in Ca(2+)-free state==	+	==Crystal structure of PET-degrading cutinase Cut190 S226P mutant in Ca(2+)-free state==
	<StructureSection load='4wfi' size='340' side='right' caption='[[4wfi]], [[Resolution\|resolution]] 1.45Å' scene=''>		<StructureSection load='4wfi' size='340' side='right' caption='[[4wfi]], [[Resolution\|resolution]] 1.45Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
Line 26:		Line 26:
	[[Category: Alpha/beta-hydrolase fold]]		[[Category: Alpha/beta-hydrolase fold]]
	[[Category: Cutinase]]		[[Category: Cutinase]]
		+	[[Category: Hydrolase]]
	[[Category: Polyesterase]]		[[Category: Polyesterase]]

OCA at 10:48, 24 December 2014

OCA — Wed, 24 Dec 2014 10:48:28 GMT

←Older revision		Revision as of 10:48, 24 December 2014
Line 1:		Line 1:
-	'''~~Unreleased~~ structure'''	+	==Crystal strucrure of PET-degrading cutinase Cut190 S226P mutant in Ca(2+)-free state==
		+	<StructureSection load='4wfi' size='340' side='right' caption='[[4wfi]], [[Resolution\|resolution]] 1.45Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[4wfi]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4WFI OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4WFI FirstGlance]. <br>
		+	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4wfj\|4wfj]], [[4wfk\|4wfk]]</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=4wfi FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4wfi OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4wfi RCSB], [http://www.ebi.ac.uk/pdbsum/4wfi PDBsum]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	A cutinase-like enzyme from Saccharomonospora viridis AHK190, Cut190, hydrolyzes the inner block of polyethylene terephthalate (PET); this enzyme is a member of the lipase family, which contains an alpha/beta hydrolase fold and a Ser-His-Asp catalytic triad. The thermostability and activity of Cut190 are enhanced by high concentrations of calcium ions, which is essential for the efficient enzymatic hydrolysis of amorphous PET. Although Ca2+-induced thermostabilization and activation of enzymes have been well explored in alpha-amylases, the mechanism for PET-degrading cutinase-like enzymes remains poorly understood. We focused on the mechanisms by which Ca2+ enhances these properties, and we determined the crystal structures of a Cut190 S226P mutant (Cut190S226P) in the Ca2+-bound and free states at 1.75 and 1.45 A resolution, respectively. Based on the crystallographic data, a Ca2+ ion was coordinated by four residues within loop regions (the Ca2+ site) and two water molecules in a tetragonal bipyramidal array. Furthermore, the binding of Ca2+ to Cut190S226P induced large conformational changes in three loops, which were accompanied by the formation of additional interactions. The binding of Ca2+ not only stabilized a region that is flexible in the Ca2+-free state but also modified the substrate-binding groove by stabilizing an open conformation that allows the substrate to bind easily. Thus, our study explains the structural basis of Ca2+-enhanced thermostability and activity in PET-degrading cutinase-like enzyme for the first time and found that the inactive state of Cut190S226P is activated by a conformational change in the active-site sealing residue, F106.

-	~~The entry 4wfi is ON HOLD until Paper Publication~~	+	Structural basis for the Ca-enhanced thermostability and activity of PET-degrading cutinase-like enzyme from Saccharomonospora viridis AHK190.,Miyakawa T, Mizushima H, Ohtsuka J, Oda M, Kawai F, Tanokura M Appl Microbiol Biotechnol. 2014 Dec 11. PMID:25492421<ref>PMID:25492421</ref>

-	~~Authors~~: Miyakawa, T., Mizushima, H~~., Ohtsuka, J.,~~ Oda, M~~., Kawai, F.~~, Tanokura, M.	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~Description~~:	+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Kawai, F]]
		+	[[Category: Miyakawa, T]]
		+	[[Category: Mizushima, H]]
		+	[[Category: Oda, M]]
		+	[[Category: Ohtsuka, J]]
		+	[[Category: Tanokura, M]]
		+	[[Category: Alpha/beta-hydrolase fold]]
		+	[[Category: Cutinase]]
		+	[[Category: Polyesterase]]

OCA at 11:28, 17 December 2014

OCA — Wed, 17 Dec 2014 11:28:28 GMT

←Older revision		Revision as of 11:28, 17 December 2014
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

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

	Authors: Miyakawa, T., Mizushima, H., Ohtsuka, J., Oda, M., Kawai, F., Tanokura, M.		Authors: Miyakawa, T., Mizushima, H., Ohtsuka, J., Oda, M., Kawai, F., Tanokura, M.

	Description:		Description:

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

OCA — Wed, 24 Sep 2014 09:13:56 GMT

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

←Older revision

Revision as of 09:13, 24 September 2014

OCA: New page: '''Unreleased structure''' The entry 4wfi is ON HOLD Authors: Miyakawa, T., Mizushima, H., Ohtsuka, J., Oda, M., Kawai, F., Tanokura, M. Description:

OCA — Wed, 24 Sep 2014 09:13:54 GMT

New page: '''Unreleased structure''' The entry 4wfi is ON HOLD Authors: Miyakawa, T., Mizushima, H., Ohtsuka, J., Oda, M., Kawai, F., Tanokura, M. Description:

New page

'''Unreleased structure'''

The entry 4wfi is ON HOLD

Authors: Miyakawa, T., Mizushima, H., Ohtsuka, J., Oda, M., Kawai, F., Tanokura, M.

Description: