4uph - Revision history

OCA at 07:31, 29 March 2023

OCA — Wed, 29 Mar 2023 07:31:35 GMT

←Older revision		Revision as of 07:31, 29 March 2023
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	<StructureSection load='4uph' size='340' side='right'caption='[[4uph]], [[Resolution\|resolution]] 2.50Å' scene=''>		<StructureSection load='4uph' size='340' side='right'caption='[[4uph]], [[Resolution\|resolution]] 2.50Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4uph]] is a 4 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Agrrk Agrrk~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4UPH OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=4UPH FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4uph]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Agrobacterium_radiobacter_K84 Agrobacterium radiobacter K84]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4UPH OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4UPH FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=MG:~~MAGNESIUM~~+~~ION~~'>MG</scene>~~</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=DDZ:3,3-DIHYDROXY+L-ALANINE'>DDZ</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></td></tr>
-	~~<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat">~~<scene name='pdbligand=~~DDZ~~:~~3,3-DIHYDROXY~~+~~L-ALANINE~~'>~~DDZ~~</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=4uph FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4uph OCA], [https://pdbe.org/4uph PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4uph RCSB], [https://www.ebi.ac.uk/pdbsum/4uph PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4uph 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=4uph FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4uph OCA], [~~http~~://pdbe.org/4uph PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=4uph RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/4uph PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=4uph ProSAT]</span></td></tr>	+
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/B9JE48_AGRRK B9JE48_AGRRK]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Agrrk~~]]	+	[[Category: Agrobacterium radiobacter K84]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Fischer, G]]	+	[[Category: Fischer G]]
-	[[Category: Hollfelder, F]]	+	[[Category: Hollfelder F]]
-	[[Category: Hyvonen, M]]	+	[[Category: Hyvonen M]]
-	[[Category: Loo~~, B v]]~~	+	[[Category: Loo Bv]]
-	~~[[Category: Hydrolase~~]]	+

OCA at 07:29, 24 April 2019

OCA — Wed, 24 Apr 2019 07:29:50 GMT

←Older revision		Revision as of 07:29, 24 April 2019
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	==Crystal Structure of Phosphonate Monoester Hydrolase of Agrobacterium radiobacter==		==Crystal Structure of Phosphonate Monoester Hydrolase of Agrobacterium radiobacter==
-	<StructureSection load='4uph' size='340' side='right' caption='[[4uph]], [[Resolution\|resolution]] 2.50Å' scene=''>	+	<StructureSection load='4uph' size='340' side='right'caption='[[4uph]], [[Resolution\|resolution]] 2.50Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[4uph]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Agrrk Agrrk]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4UPH OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4UPH FirstGlance]. <br>		<table><tr><td colspan='2'>[[4uph]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Agrrk Agrrk]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4UPH OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4UPH FirstGlance]. <br>
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	</StructureSection>		</StructureSection>
	[[Category: Agrrk]]		[[Category: Agrrk]]
		+	[[Category: Large Structures]]
	[[Category: Fischer, G]]		[[Category: Fischer, G]]
	[[Category: Hollfelder, F]]		[[Category: Hollfelder, F]]

OCA at 08:40, 19 December 2018

OCA — Wed, 19 Dec 2018 08:40:05 GMT

←Older revision		Revision as of 08:40, 19 December 2018
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	<StructureSection load='4uph' size='340' side='right' caption='[[4uph]], [[Resolution\|resolution]] 2.50Å' scene=''>		<StructureSection load='4uph' size='340' side='right' caption='[[4uph]], [[Resolution\|resolution]] 2.50Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4uph]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4UPH OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4UPH FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4uph]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Agrrk Agrrk]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4UPH OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4UPH FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></td></tr>
	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=DDZ:3,3-DIHYDROXY+L-ALANINE'>DDZ</scene></td></tr>		<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=DDZ:3,3-DIHYDROXY+L-ALANINE'>DDZ</scene></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=4uph FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4uph OCA], [http://pdbe.org/4uph PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4uph RCSB], [http://www.ebi.ac.uk/pdbsum/4uph PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4uph 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=4uph FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4uph OCA], [http://pdbe.org/4uph PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4uph RCSB], [http://www.ebi.ac.uk/pdbsum/4uph PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4uph ProSAT]</span></td></tr>
	</table>		</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Highly proficient, promiscuous enzymes can be springboards for functional evolution, able to avoid loss of function during adaptation by their capacity to promote multiple reactions. We employ systematic comparative study of structure, sequence and substrate specificity to track the evolution of specificity and reactivity between promiscuous members of clades of the alkaline phosphatase (AP) superfamily. Construction of a phylogenetic tree of protein sequences maps out the likely transition zone between arylsulfatases (ASs) and phosphonate monoester hydrolases (PMHs). Kinetic analysis shows that all enzymes characterized have four chemically distinct phospho- and sulfoesterase activities, with rate accelerations ranging from 1011-1017-fold for their primary and 109-1012-fold for their promiscuous reactions, suggesting that catalytic promiscuity is widespread in the AP-superfamily. This functional characterization and crystallography reveal a novel class of ASs that is so similar in sequence to known PMHs that it had not been recognized as having diverged in function. Based on analysis of snapshots of catalytic promiscuity 'in transition' we develop possible models that would allow functional evolution and determine scenarios for trade-off between multiple activities. For the new ASs we observe largely invariant substrate specificity that would facilitate the transition from ASs to PMHs via trade-off-free molecular exaptation, i.e. evolution without initial loss of primary activity and specificity toward the original substrate. This ability to bypass low activity generalists provides a molecular solution to avoid adaptive conflict.
		+
		+	Balancing Specificity and Promiscuity in Enzyme Evolution: Multidimensional Activity Transitions in the Alkaline Phosphatase Superfamily.,van Loo B, Bayer CD, Fischer G, Jonas S, Valkov E, Mohamed MF, Vorobieva A, Dutruel C, Hyvonen M, Hollfelder F J Am Chem Soc. 2018 Nov 30. doi: 10.1021/jacs.8b10290. PMID:30497259<ref>PMID:30497259</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 4uph" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Agrrk]]
	[[Category: Fischer, G]]		[[Category: Fischer, G]]
	[[Category: Hollfelder, F]]		[[Category: Hollfelder, F]]

OCA at 03:34, 10 December 2016

OCA — Sat, 10 Dec 2016 03:34:51 GMT

←Older revision		Revision as of 03:34, 10 December 2016
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		+
	==Crystal Structure of Phosphonate Monoester Hydrolase of Agrobacterium radiobacter==		==Crystal Structure of Phosphonate Monoester Hydrolase of Agrobacterium radiobacter==
	<StructureSection load='4uph' size='340' side='right' caption='[[4uph]], [[Resolution\|resolution]] 2.50Å' scene=''>		<StructureSection load='4uph' size='340' side='right' caption='[[4uph]], [[Resolution\|resolution]] 2.50Å' scene=''>
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	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></td></tr>
	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=DDZ:3,3-DIHYDROXY+L-ALANINE'>DDZ</scene></td></tr>		<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=DDZ:3,3-DIHYDROXY+L-ALANINE'>DDZ</scene></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=4uph FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4uph OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4uph RCSB], [http://www.ebi.ac.uk/pdbsum/4uph 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=4uph FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4uph OCA], [http://pdbe.org/4uph PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4uph RCSB], [http://www.ebi.ac.uk/pdbsum/4uph PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4uph ProSAT]</span></td></tr>
	</table>		</table>
	__TOC__		__TOC__

OCA at 12:21, 1 July 2015

OCA — Wed, 01 Jul 2015 12:21:19 GMT

←Older revision		Revision as of 12:21, 1 July 2015
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-	'''~~Unreleased structure~~'''	+	==Crystal Structure of Phosphonate Monoester Hydrolase of Agrobacterium radiobacter==
-		+	<StructureSection load='4uph' size='340' side='right' caption='[[4uph]], [[Resolution\|resolution]] 2.50Å' scene=''>
-	~~The entry~~ 4uph is ~~ON HOLD until Paper Publication~~	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>[[4uph]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4UPH OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4UPH FirstGlance]. <br>
-	~~Authors~~: ~~Fischer, G~~.~~, Loo, B~~.v.~~, Hyvonen, M~~.~~, Hollfelder, F~~.	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></td></tr>
-		+	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=DDZ:3,3-DIHYDROXY+L-ALANINE'>DDZ</scene></td></tr>
-	~~Description: Crystal Structure of Phosphonate Monoester Hydrolase of Agrobacterium radiobacter~~	+	<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=4uph FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4uph OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4uph RCSB], [http://www.ebi.ac.uk/pdbsum/4uph PDBsum]</span></td></tr>
-	[[~~Category~~: ~~Unreleased Structures~~]]	+	</table>
-	[[~~Category~~: ~~Hyvonen, M~~]]	+	__TOC__
-	[~~[Category~~: ~~Hollfelder, F~~]]	+	</StructureSection>
-	[~~[Category~~: ~~Loo~~, B.V]]	+
	[[Category: Fischer, G]]		[[Category: Fischer, G]]
		+	[[Category: Hollfelder, F]]
		+	[[Category: Hyvonen, M]]
		+	[[Category: Loo, B v]]
		+	[[Category: Hydrolase]]

OCA at 07:49, 8 April 2015

OCA — Wed, 08 Apr 2015 07:49:16 GMT

←Older revision		Revision as of 07:49, 8 April 2015
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

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

	Authors: Fischer, G., Loo, B.v., Hyvonen, M., Hollfelder, F.		Authors: Fischer, G., Loo, B.v., Hyvonen, M., Hollfelder, F.

OCA at 18:33, 24 December 2014

OCA — Wed, 24 Dec 2014 18:33:46 GMT

←Older revision		Revision as of 18:33, 24 December 2014
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	Description: Crystal Structure of Phosphonate Monoester Hydrolase of Agrobacterium radiobacter		Description: Crystal Structure of Phosphonate Monoester Hydrolase of Agrobacterium radiobacter
		+	[[Category: Unreleased Structures]]
		+	[[Category: Hyvonen, M]]
		+	[[Category: Hollfelder, F]]
		+	[[Category: Loo, B.V]]
		+	[[Category: Fischer, G]]

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

OCA — Wed, 25 Jun 2014 06:07:14 GMT

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

←Older revision

Revision as of 06:07, 25 June 2014

OCA: New page: '''Unreleased structure''' The entry 4uph is ON HOLD Authors: Fischer, G., Loo, B.v., Hyvonen, M., Hollfelder, F. Description: Crystal Structure of Phosphonate Monoester Hydrolase of A...

OCA — Wed, 25 Jun 2014 06:07:12 GMT

New page: '''Unreleased structure''' The entry 4uph is ON HOLD Authors: Fischer, G., Loo, B.v., Hyvonen, M., Hollfelder, F. Description: Crystal Structure of Phosphonate Monoester Hydrolase of A...

New page

'''Unreleased structure'''

The entry 4uph is ON HOLD

Authors: Fischer, G., Loo, B.v., Hyvonen, M., Hollfelder, F.

Description: Crystal Structure of Phosphonate Monoester Hydrolase of Agrobacterium radiobacter