5v00 - Revision history

OCA at 13:38, 4 October 2023

2023-10-04T13:38:03Z

←Older revision		Revision as of 13:38, 4 October 2023
Line 3:		Line 3:
	<StructureSection load='5v00' size='340' side='right'caption='[[5v00]], [[Resolution\|resolution]] 1.80Å' scene=''>		<StructureSection load='5v00' size='340' side='right'caption='[[5v00]], [[Resolution\|resolution]] 1.80Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5v00]] is a 2 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Psefs Psefs~~]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=3esg 3esg]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5V00 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5V00 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5v00]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Pseudomonas_fluorescens_SBW25 Pseudomonas fluorescens SBW25]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=3esg 3esg]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5V00 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5V00 FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat"~~><scene name~~=~~'pdbligand=FMT:FORMIC+ACID'>FMT</scene~~>, ~~<scene name='pdbligand=GOL:GLYCEROL'>GOL</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]] 1.8Å</td></tr>
-	<tr id='~~related~~'><td class="sblockLbl"><b>[[~~Related_structure~~\|~~Related~~:]]</b></td><td class="sblockDat">~~[[5fcc\|5fcc]]~~<~~/td~~></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=FMT:FORMIC+ACID'>FMT</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene></td></tr>
-	<~~tr id~~='~~gene'><td class~~=~~"sblockLbl"><b>[[Gene\|Gene~~:~~]]</b~~></td>~~<td class="sblockDat">PFLU_0360 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=216595 PSEFS])~~</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=5v00 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5v00 OCA], [https://pdbe.org/5v00 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5v00 RCSB], [https://www.ebi.ac.uk/pdbsum/5v00 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5v00 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=5v00 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5v00 OCA], [~~http~~://pdbe.org/5v00 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5v00 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5v00 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5v00 ProSAT]</span></td></tr>	+
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/C3K802_PSEFS C3K802_PSEFS]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 23:		Line 24:
	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Psefs~~]]	+	[[Category: Pseudomonas fluorescens SBW25]]
-	[[Category: Baker~~, E N~~]]	+	[[Category: Baker EN]]
-	[[Category: Gerth~~, M L~~]]	+	[[Category: Gerth ML]]
-	[[Category: Johnston~~, J M~~]]	+	[[Category: Johnston JM]]
-	[[Category: Liu, Y]]	+	[[Category: Liu Y]]
-	[[Category: Lott~~, J S~~]]	+	[[Category: Lott JS]]
-	[[Category: Rainey~~, P B]]~~	+	[[Category: Rainey PB]]
-	~~[[Category: Bicupin]]~~	+
-	~~[[Category: Histidine degradation]]~~	+
-	~~[[Category: Unknown function~~]]	+

OCA at 09:25, 1 January 2020

2020-01-01T09:25:26Z

←Older revision		Revision as of 09:25, 1 January 2020
Line 1:		Line 1:

	==Structure of HutD from Pseudomonas fluorescens SBW25 (Formate condition)==		==Structure of HutD from Pseudomonas fluorescens SBW25 (Formate condition)==
-	<StructureSection load='5v00' size='340' side='right' caption='[[5v00]], [[Resolution\|resolution]] 1.80Å' scene=''>	+	<StructureSection load='5v00' size='340' side='right'caption='[[5v00]], [[Resolution\|resolution]] 1.80Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5v00]] is a 2 chain structure. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=3esg 3esg]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5V00 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5V00 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5v00]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Psefs Psefs]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=3esg 3esg]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5V00 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5V00 FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=FMT:FORMIC+ACID'>FMT</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=FMT:FORMIC+ACID'>FMT</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5fcc\|5fcc]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5fcc\|5fcc]]</td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">PFLU_0360 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=216595 PSEFS])</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=5v00 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5v00 OCA], [http://pdbe.org/5v00 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5v00 RCSB], [http://www.ebi.ac.uk/pdbsum/5v00 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5v00 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=5v00 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5v00 OCA], [http://pdbe.org/5v00 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5v00 RCSB], [http://www.ebi.ac.uk/pdbsum/5v00 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5v00 ProSAT]</span></td></tr>
	</table>		</table>
Line 21:		Line 22:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Large Structures]]
		+	[[Category: Psefs]]
	[[Category: Baker, E N]]		[[Category: Baker, E N]]
	[[Category: Gerth, M L]]		[[Category: Gerth, M L]]

OCA at 06:30, 19 April 2017

2017-04-19T06:30:27Z

←Older revision		Revision as of 06:30, 19 April 2017
Line 8:		Line 8:
	<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=5v00 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5v00 OCA], [http://pdbe.org/5v00 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5v00 RCSB], [http://www.ebi.ac.uk/pdbsum/5v00 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5v00 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=5v00 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5v00 OCA], [http://pdbe.org/5v00 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5v00 RCSB], [http://www.ebi.ac.uk/pdbsum/5v00 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5v00 ProSAT]</span></td></tr>
	</table>		</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Cupins form one of the most functionally diverse superfamilies of proteins, with members performing a wide range of catalytic, non-catalytic, and regulatory functions. HutD is a predicted bicupin protein that is involved in histidine utilization (Hut) in Pseudomonas species. Previous genetic analyses have suggested that it limits the upper level of Hut pathway expression, but its mechanism of action is unknown. Here, we have determined the structure of PfluHutD at 1.74 A resolution in several crystallization conditions, and identified N-formyl-L-glutamate (a Hut pathway intermediate) is a potential ligand in vivo. This article is protected by copyright. All rights reserved.
		+
		+	Crystal structure of a bicupin protein HutD involved in histidine utilization in Pseudomonas.,Gerth ML, Liu Y, Jiao W, Zhang XX, Baker EN, Lott JS, Rainey PB, Johnston JM Proteins. 2017 Apr 6. doi: 10.1002/prot.25303. PMID:28383128<ref>PMID:28383128</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 5v00" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>

OCA at 21:01, 15 March 2017

2017-03-15T21:01:44Z

←Older revision		Revision as of 21:01, 15 March 2017
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 5v00 ~~is ON HOLD~~	+	==Structure of HutD from Pseudomonas fluorescens SBW25 (Formate condition)==
-		+	<StructureSection load='5v00' size='340' side='right' caption='[[5v00]], [[Resolution\|resolution]] 1.80Å' scene=''>
-	~~Authors~~: ~~Liu, Y~~., ~~Johnston, J~~.M., ~~Gerth, M~~.L., ~~Baker~~, E.N., ~~Lott, J~~.S., ~~Rainey, P~~.B.	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>[[5v00]] is a 2 chain structure. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=3esg 3esg]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5V00 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5V00 FirstGlance]. <br>
-	~~Description: Structure of HutD from Pseudomonas fluorescens SBW25 (Formate condition)~~	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=FMT:FORMIC+ACID'>FMT</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene></td></tr>
-	[[Category: ~~Unreleased Structures~~]]	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5fcc\|5fcc]]</td></tr>
-	[[Category: Gerth, M.L]]	+	<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=5v00 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5v00 OCA], [http://pdbe.org/5v00 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5v00 RCSB], [http://www.ebi.ac.uk/pdbsum/5v00 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5v00 ProSAT]</span></td></tr>
-	[[Category: ~~Lott~~, J~~.S]]~~	+	</table>
-	~~[[Category: Rainey, P.B~~]]	+	__TOC__
		+	</StructureSection>
		+	[[Category: Baker, E N]]
		+	[[Category: Gerth, M L]]
		+	[[Category: Johnston, J M]]
	[[Category: Liu, Y]]		[[Category: Liu, Y]]
-	[[Category: ~~Johnston~~, J.M]]	+	[[Category: Lott, J S]]
-	[[Category: ~~Baker~~, ~~E.N~~]]	+	[[Category: Rainey, P B]]
		+	[[Category: Bicupin]]
		+	[[Category: Histidine degradation]]
		+	[[Category: Unknown function]]

OCA: Protected "5v00" [edit=sysop:move=sysop]

2017-03-09T15:09:59Z

Protected "5v00" [edit=sysop:move=sysop]

←Older revision

Revision as of 15:09, 9 March 2017

OCA: New page: '''Unreleased structure''' The entry 5v00 is ON HOLD Authors: Liu, Y., Johnston, J.M., Gerth, M.L., Baker, E.N., Lott, J.S., Rainey, P.B. Description: Structure of HutD from Pseudomona...

2017-03-09T15:09:58Z

New page: '''Unreleased structure''' The entry 5v00 is ON HOLD Authors: Liu, Y., Johnston, J.M., Gerth, M.L., Baker, E.N., Lott, J.S., Rainey, P.B. Description: Structure of HutD from Pseudomona...

New page

'''Unreleased structure'''

The entry 5v00 is ON HOLD

Authors: Liu, Y., Johnston, J.M., Gerth, M.L., Baker, E.N., Lott, J.S., Rainey, P.B.

Description: Structure of HutD from Pseudomonas fluorescens SBW25 (Formate condition)
[[Category: Unreleased Structures]]
[[Category: Gerth, M.L]]
[[Category: Lott, J.S]]
[[Category: Rainey, P.B]]
[[Category: Liu, Y]]
[[Category: Johnston, J.M]]
[[Category: Baker, E.N]]