6t26 - Revision history

OCA at 12:52, 24 January 2024

OCA — Wed, 24 Jan 2024 12:52:48 GMT

←Older revision		Revision as of 12:52, 24 January 2024
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	<StructureSection load='6t26' size='340' side='right'caption='[[6t26]], [[Resolution\|resolution]] 2.27Å' scene=''>		<StructureSection load='6t26' size='340' side='right'caption='[[6t26]], [[Resolution\|resolution]] 2.27Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6t26]] is a 2 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Vibrio_sp.~~_g15~~-21 Vibrio sp. ~~g15~~-21]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6T26 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=6T26 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6t26]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Vibrio_sp._G15-21 Vibrio sp. G15-21]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6T26 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6T26 FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=HAI:CYCLOHEXYLAMMONIUM+ION'>HAI</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</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]] 2.265Å</td></tr>
-	~~<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3e2d\|3e2d]]~~</td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=HAI:CYCLOHEXYLAMMONIUM+ION'>HAI</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</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'>[~~http~~://proteopedia.org/fgij/fg.htm?mol=6t26 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6t26 OCA], [~~http~~://pdbe.org/6t26 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=6t26 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/6t26 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=6t26 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=6t26 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6t26 OCA], [https://pdbe.org/6t26 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6t26 RCSB], [https://www.ebi.ac.uk/pdbsum/6t26 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6t26 ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/Q93P54_9VIBR Q93P54_9VIBR]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
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	</div>		</div>
	<div class="pdbe-citations 6t26" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 6t26" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Alkaline phosphatase 3D structures\|Alkaline phosphatase 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
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	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Vibrio sp. ~~g15~~-21]]	+	[[Category: Vibrio sp. G15-21]]
-	[[Category: Asgeirsson, B]]	+	[[Category: Asgeirsson B]]
-	[[Category: Helland, R]]	+	[[Category: Helland R]]
-	[[Category: Hjorleifsson~~, J G~~]]	+	[[Category: Hjorleifsson JG]]
-	[[Category: Markusson, S]]	+	[[Category: Markusson S]]
-	~~[[Category: Enzyme dynamics disordered loop homodimer]]~~	+
-	~~[[Category: Hydrolase]]~~	+
-	~~[[Category: Non-competative inhibition~~]]	+

OCA at 07:33, 4 November 2020

OCA — Wed, 04 Nov 2020 07:33:31 GMT

←Older revision		Revision as of 07:33, 4 November 2020
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	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://proteopedia.org/fgij/fg.htm?mol=6t26 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6t26 OCA], [http://pdbe.org/6t26 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6t26 RCSB], [http://www.ebi.ac.uk/pdbsum/6t26 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6t26 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=6t26 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6t26 OCA], [http://pdbe.org/6t26 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6t26 RCSB], [http://www.ebi.ac.uk/pdbsum/6t26 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6t26 ProSAT]</span></td></tr>
	</table>		</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Background: Para-nitrophenyl phosphate, the common substrate for alkaline phosphatase (AP), is available as a cyclohexylamine salt. Here, we report that cyclohexylamine is a non-competitive inhibitor of APs. Methods: Cyclohexylamine inhibited four different APs. Co-crystallization with the cold-active Vibrio AP (VAP) was performed and the structure solved. Results: Inhibition of VAP fitted a non-competitive kinetic model (Km unchanged, Vmax reduced) with IC50 45.3 mM at the pH optimum 9.8, not sensitive to 0.5 M NaCl, and IC50 27.9 mM at pH 8.0, where the addition of 0.5 M NaCl altered the inhibition to the level observed at pH 9.8. APs from E. coli and calf intestines were less sensitive to cyclohexylamine, whereas an Antarctic bacterial AP was similar to VAP in this respect. X-ray crystallography at 2.3 A showed two binding sites, one in the active site channel and another at the surface close to dimer interface. Antarctic bacterial AP and VAP have Trp274 in common in their active-sites, that takes part in binding cyclohexylamine. VAP variants W274A, W274K, and W274H gave IC50 values of 179 mM, 188 mM and 187 mM, respectively, at pH 9.8. Conclusions: The binding of cyclohexylamine in locations at the dimeric interface and/or in the active site of APs may delay product release or reduce the rate of catalytic step(s) involving conformational changes and intersubunit communications. General significance: Cyclohexylamine is a common chemical in industries and used as a counterion in substrates for alkaline phosphatase, a clinically important and common enzyme in the biosphere.
		+
		+	X-ray crystal structure of Vibrio alkaline phosphatase with the non-competitive inhibitor cyclohexylamine.,Asgeirsson B, Markusson S, Hlynsdottir SS, Helland R, Hjorleifsson JG Biochem Biophys Rep. 2020 Oct 15;24:100830. doi: 10.1016/j.bbrep.2020.100830., eCollection 2020 Dec. PMID:33102813<ref>PMID:33102813</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 6t26" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>

OCA at 20:45, 28 October 2020

OCA — Wed, 28 Oct 2020 20:45:30 GMT

←Older revision		Revision as of 20:45, 28 October 2020
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	==X-ray crystal structure of Vibrio alkaline phosphatase with the non-competitive inhibitor cyclohexylamine==		==X-ray crystal structure of Vibrio alkaline phosphatase with the non-competitive inhibitor cyclohexylamine==
-	<StructureSection load='6t26' size='340' side='right'caption='[[6t26]]' scene=''>	+	<StructureSection load='6t26' size='340' side='right'caption='[[6t26]], [[Resolution\|resolution]] 2.27Å' 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=6T26 OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=6T26 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6t26]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Vibrio_sp._g15-21 Vibrio sp. g15-21]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6T26 OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=6T26 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=6t26 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6t26 OCA], [http://pdbe.org/6t26 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6t26 RCSB], [http://www.ebi.ac.uk/pdbsum/6t26 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6t26 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=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=HAI:CYCLOHEXYLAMMONIUM+ION'>HAI</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</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">[[3e2d\|3e2d]]</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=6t26 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6t26 OCA], [http://pdbe.org/6t26 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6t26 RCSB], [http://www.ebi.ac.uk/pdbsum/6t26 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6t26 ProSAT]</span></td></tr>
	</table>		</table>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Asgeirsson B]]	+	[[Category: Vibrio sp. g15-21]]
-	[[Category: Helland R]]	+	[[Category: Asgeirsson, B]]
-	[[Category: Hjorleifsson JG]]	+	[[Category: Helland, R]]
-	[[Category: Markusson S]]	+	[[Category: Hjorleifsson, J G]]
		+	[[Category: Markusson, S]]
		+	[[Category: Enzyme dynamics disordered loop homodimer]]
		+	[[Category: Hydrolase]]
		+	[[Category: Non-competative inhibition]]

OCA at 08:13, 21 October 2020

OCA — Wed, 21 Oct 2020 08:13:14 GMT

←Older revision		Revision as of 08:13, 21 October 2020
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 6t26 is ~~ON HOLD until Paper Publication~~	+	==X-ray crystal structure of Vibrio alkaline phosphatase with the non-competitive inhibitor cyclohexylamine==
-		+	<StructureSection load='6t26' size='340' side='right'caption='[[6t26]]' scene=''>
-	~~Authors~~:	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6T26 OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=6T26 FirstGlance]. <br>
-	~~Description~~:	+	</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=6t26 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6t26 OCA], [http://pdbe.org/6t26 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6t26 RCSB], [http://www.ebi.ac.uk/pdbsum/6t26 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6t26 ProSAT]</span></td></tr>
-	[[Category: ~~Unreleased Structures~~]]	+	</table>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Large Structures]]
		+	[[Category: Asgeirsson B]]
		+	[[Category: Helland R]]
		+	[[Category: Hjorleifsson JG]]
		+	[[Category: Markusson S]]

OCA at 06:04, 22 July 2020

OCA — Wed, 22 Jul 2020 06:04:10 GMT

←Older revision		Revision as of 06:04, 22 July 2020
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 6t26 is ON HOLD	+	The entry 6t26 is ON HOLD until Paper Publication

	Authors:		Authors:

OCA: Protected "6t26" [edit=sysop:move=sysop]

OCA — Wed, 16 Oct 2019 04:27:26 GMT

Protected "6t26" [edit=sysop:move=sysop]

←Older revision

Revision as of 04:27, 16 October 2019

OCA: New page: '''Unreleased structure''' The entry 6t26 is ON HOLD Authors: Description: Category: Unreleased Structures

OCA — Wed, 16 Oct 2019 04:27:24 GMT

New page: '''Unreleased structure''' The entry 6t26 is ON HOLD Authors: Description: Category: Unreleased Structures

New page

'''Unreleased structure'''

The entry 6t26 is ON HOLD

Authors:

Description:
[[Category: Unreleased Structures]]