3asy - Revision history

OCA at 14:01, 13 March 2024

2024-03-13T14:01:49Z

@@ Line 9: / Line 9: @@
 == Function ==
 [https://www.uniprot.org/uniprot/URK_THET8 URK_THET8]
 __TOC__
 </StructureSection>

OCA at 15:54, 4 October 2023

2023-10-04T15:54:29Z

← Older revision		Revision as of 15:54, 4 October 2023
Line 3:		Line 3:
	<StructureSection load='3asy' size='340' side='right'caption='[[3asy]], [[Resolution\|resolution]] 2.40Å' scene=''>		<StructureSection load='3asy' size='340' side='right'caption='[[3asy]], [[Resolution\|resolution]] 2.40Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[3asy]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/~~Thet8 Thet8~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3ASY OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3ASY FirstGlance]. <br>		<table><tr><td colspan='2'>[[3asy]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Thermus_thermophilus_HB8 Thermus thermophilus HB8]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3ASY OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3ASY FirstGlance]. <br>
	</td></tr><tr id='~~related~~'><td class="sblockLbl"><b>[[~~Related_structure~~\|~~Related~~:]]</b></td><td class="sblockDat"~~><div style='overflow: auto; max-height: 3em;'>[[3asz\|3asz]]</div></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]] 2.4Å</td></tr>
	~~<tr~~ id~~='gene'><td class~~="~~sblockLbl~~">~~<b>~~[[~~Gene~~\|~~Gene:~~]]~~</b></td><td class="sblockDat">udk, TTHA0578 ([https://www.ncbi~~.~~nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info~~&~~srchmode=5&id=300852 THET8])</td></tr>~~
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/Uridine_kinase Uridine kinase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.1.48 2.7.1.48] </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=3asy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3asy OCA], [https://pdbe.org/3asy PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3asy RCSB], [https://www.ebi.ac.uk/pdbsum/3asy PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3asy 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=3asy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3asy OCA], [https://pdbe.org/3asy PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3asy RCSB], [https://www.ebi.ac.uk/pdbsum/3asy PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3asy ProSAT]</span></td></tr>
	</table>		</table>
			== Function ==
			[https://www.uniprot.org/uniprot/URK_THET8 URK_THET8]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 23:		Line 23:
	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
	[[Category: ~~Thet8]]~~		[[Category: Thermus thermophilus HB8]]
	~~[[Category: Uridine kinase~~]]		[[Category: Kuramitsu S]]
	[[Category: Kuramitsu, S]]		[[Category: Masui R]]
	[[Category: Masui, R]]		[[Category: Nakagawa N]]
	[[Category: Nakagawa, N]]		[[Category: Tomoike F]]
	[[Category: Tomoike, F]]
	~~[[Category: Cytidine phosphorylation]]~~
	~~[[Category: Transferase~~]]

OCA at 15:03, 29 December 2021

2021-12-29T15:03:31Z

← Older revision		Revision as of 15:03, 29 December 2021
Line 1:		Line 1:

	==ligand-free structure of uridine kinase from thermus thermophilus HB8==		==ligand-free structure of uridine kinase from thermus thermophilus HB8==
	<StructureSection load='3asy' size='340' side='right' caption='[[3asy]], [[Resolution\|resolution]] 2.40Å' scene=''>		<StructureSection load='3asy' size='340' side='right'caption='[[3asy]], [[Resolution\|resolution]] 2.40Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[3asy]] is a 2 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Thet8 Thet8]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3ASY OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=3ASY FirstGlance]. <br>		<table><tr><td colspan='2'>[[3asy]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Thet8 Thet8]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3ASY OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3ASY FirstGlance]. <br>
	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3asz\|3asz]]</td></tr>		</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[3asz\|3asz]]</div></td></tr>
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">udk, TTHA0578 ([~~http~~://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=300852 THET8])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">udk, TTHA0578 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=300852 THET8])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://en.wikipedia.org/wiki/Uridine_kinase Uridine kinase], with EC number [~~http~~://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.1.48 2.7.1.48] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/Uridine_kinase Uridine kinase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.1.48 2.7.1.48] </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=3asy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3asy OCA], [~~http~~://pdbe.org/3asy PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=3asy RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/3asy PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=3asy 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=3asy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3asy OCA], [https://pdbe.org/3asy PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3asy RCSB], [https://www.ebi.ac.uk/pdbsum/3asy PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3asy ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
Line 22:		Line 22:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
			[[Category: Large Structures]]
	[[Category: Thet8]]		[[Category: Thet8]]
	[[Category: Uridine kinase]]		[[Category: Uridine kinase]]

OCA at 08:25, 5 August 2016

2016-08-05T08:25:55Z

← Older revision		Revision as of 08:25, 5 August 2016
Line 1:		Line 1:

	==ligand-free structure of uridine kinase from thermus thermophilus HB8==		==ligand-free structure of uridine kinase from thermus thermophilus HB8==
	<StructureSection load='3asy' size='340' side='right' caption='[[3asy]], [[Resolution\|resolution]] 2.40Å' scene=''>		<StructureSection load='3asy' size='340' side='right' caption='[[3asy]], [[Resolution\|resolution]] 2.40Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[3asy]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Thermus_thermophilus Thermus thermophilus~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3ASY OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3ASY FirstGlance]. <br>		<table><tr><td colspan='2'>[[3asy]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Thet8 Thet8]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3ASY OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3ASY FirstGlance]. <br>
	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3asz\|3asz]]</td></tr>		</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3asz\|3asz]]</td></tr>
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">udk, TTHA0578 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=~~274 Thermus thermophilus~~])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">udk, TTHA0578 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=300852 THET8])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Uridine_kinase Uridine kinase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.1.48 2.7.1.48] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Uridine_kinase Uridine kinase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.1.48 2.7.1.48] </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=3asy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3asy OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3asy RCSB], [http://www.ebi.ac.uk/pdbsum/3asy 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=3asy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3asy OCA], [http://pdbe.org/3asy PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3asy RCSB], [http://www.ebi.ac.uk/pdbsum/3asy PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3asy ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
Line 16:		Line 17:
	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 3asy" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	[[Category: ~~Thermus thermophilus~~]]		[[Category: Thet8]]
	[[Category: Uridine kinase]]		[[Category: Uridine kinase]]
	[[Category: Kuramitsu, S]]		[[Category: Kuramitsu, S]]

OCA at 13:42, 18 December 2014

2014-12-18T13:42:20Z

← Older revision		Revision as of 13:42, 18 December 2014
Line 1:		Line 1:
	~~{{STRUCTURE_3asy\| PDB=3asy \| SCENE= }}~~		==ligand-free structure of uridine kinase from thermus thermophilus HB8==
	===ligand-free structure of uridine kinase from thermus thermophilus HB8===		<StructureSection load='3asy' size='340' side='right' caption='[[3asy]], [[Resolution\|resolution]] 2.40Å' scene=''>
	~~{{ABSTRACT_PUBMED_21539325}}~~		== Structural highlights ==
			<table><tr><td colspan='2'>[[3asy]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Thermus_thermophilus Thermus thermophilus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3ASY OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3ASY FirstGlance]. <br>
			</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3asz\|3asz]]</td></tr>
			<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">udk, TTHA0578 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=274 Thermus thermophilus])</td></tr>
			<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Uridine_kinase Uridine kinase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.1.48 2.7.1.48] </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=3asy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3asy OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3asy RCSB], [http://www.ebi.ac.uk/pdbsum/3asy PDBsum]</span></td></tr>
			</table>
			<div style="background-color:#fffaf0;">
			== Publication Abstract from PubMed ==
			The salvage pathways of nucleotide biosynthesis are more diverse and are less well understood as compared with de novo pathways. Uridine-cytidine kinase (UCK) is the rate-limiting enzyme in the pyrimidine-nucleotide salvage pathway. In this study, we have characterized a UCK homologue of Thermus thermophilus HB8 (ttCK) biochemically and structurally. Unlike other UCKs, ttCK had substrate specificity toward only cytidine and showed no inhibition by UTP, suggesting uridine does not bind to ttCK as substrate. Structural analysis revealed that the histidine residue located near the functional group at position 4 of cytidine or uridine in most UCKs is substituted with tyrosine, Tyr93, in ttCK. Replacement of Tyr93 by histidine or glutamine endowed ttCK with phosphorylation activity toward uridine. These results suggested that a single amino acid residue, Tyr93, gives cytidine-limited specificity to ttCK. However, replacement of Tyr93 by Phe or Leu did not change the substrate specificity of ttCK. Therefore, we conclude that a residue at this position is essential for the recognition of uridine by UCK. In addition, thymidine phosphorylase from T. thermophilus HB8 was equally active with thymidine and uridine, which indicates that this protein is the sole enzyme metabolizing uridine in T. Thermophilus HB8. On the basis of these results, we discuss the pyrimidine-salvage pathway in T. thermophilus HB8.

	~~==About this Structure==~~		A Single Amino Acid Limits the Substrate Specificity of Thermus thermophilus Uridine-Cytidine Kinase to Cytidine.,Tomoike F, Nakagawa N, Kuramitsu S, Masui R Biochemistry. 2011 May 31;50(21):4597-607. Epub 2011 May 3. PMID:21539325<ref>PMID:21539325</ref>
	~~[[3asy]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Thermus_thermophilus~~ Thermus thermophilus]. ~~Full crystallographic information is available from [http~~:~~//oca~~.~~weizmann~~.~~ac.il/oca-bin~~/~~ocashort?id=3ASY OCA].~~

	==~~Reference~~==		From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
	~~<ref group="xtra">PMID:021539325</ref>~~<references ~~group="xtra"~~/><~~references~~/>		</div>
			== References ==
			<references/>
			__TOC__
			</StructureSection>
	[[Category: Thermus thermophilus]]		[[Category: Thermus thermophilus]]
	[[Category: Uridine kinase]]		[[Category: Uridine kinase]]
	[[Category: Kuramitsu, S.]]		[[Category: Kuramitsu, S]]
	[[Category: Masui, R.]]		[[Category: Masui, R]]
	[[Category: Nakagawa, N.]]		[[Category: Nakagawa, N]]
	[[Category: Tomoike, F.]]		[[Category: Tomoike, F]]
	[[Category: Cytidine phosphorylation]]		[[Category: Cytidine phosphorylation]]
	[[Category: Transferase]]		[[Category: Transferase]]

OCA at 02:40, 4 April 2013

2013-04-04T02:40:02Z

@@ Line 1: / Line 1: @@
 {{STRUCTURE_3asy|  PDB=3asy  |  SCENE=  }}
 ===ligand-free structure of uridine kinase from thermus thermophilus HB8===
 {{ABSTRACT_PUBMED_21539325}}
@@ Line 22: / Line 7: @@
 ==Reference==
-<ref group="xtra">PMID:021539325</ref><references group="xtra"/>
+<ref group="xtra">PMID:021539325</ref><references group="xtra"/><references/>
 [[Category: Thermus thermophilus]]
 [[Category: Uridine kinase]]
@@ Line 29: / Line 14: @@
 [[Category: Nakagawa, N.]]
 [[Category: Tomoike, F.]]

OCA at 05:45, 1 June 2011

2011-06-01T05:45:41Z

@@ Line 1: / Line 1: @@
-'''Unreleased structure'''
+[[Image:3asy.jpg|left|200px]]
-The entry 3asy is ON HOLD  until Dec 22 2012
+<!--
-Authors: Tomoike, F., Nakagawa, N., Kuramitsu, S., Masui, R.
+===ligand-free structure of uridine kinase from thermus thermophilus HB8===
-Description: ligand-free structure of uridine kinase from thermus thermophilus HB8

OCA at 06:21, 4 May 2011

2011-05-04T06:21:17Z

← Older revision		Revision as of 06:21, 4 May 2011
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

	The entry 3asy is ON HOLD until ~~Paper Publication~~		The entry 3asy is ON HOLD until Dec 22 2012

	Authors: Tomoike, F., Nakagawa, N., Kuramitsu, S., Masui, R.		Authors: Tomoike, F., Nakagawa, N., Kuramitsu, S., Masui, R.

	Description: ligand-free structure of uridine kinase from thermus thermophilus HB8		Description: ligand-free structure of uridine kinase from thermus thermophilus HB8

OCA at 10:10, 21 April 2011

2011-04-21T10:10:59Z

← Older revision		Revision as of 10:10, 21 April 2011
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

	The entry 3asy is ON HOLD		The entry 3asy is ON HOLD until Paper Publication

	Authors: Tomoike, F., Nakagawa, N., Kuramitsu, S., Masui, R.		Authors: Tomoike, F., Nakagawa, N., Kuramitsu, S., Masui, R.

	Description: ligand-free structure of uridine kinase from thermus thermophilus HB8		Description: ligand-free structure of uridine kinase from thermus thermophilus HB8

OCA: Protected "3asy" [edit=sysop:move=sysop]

2010-12-29T18:07:58Z

Protected "3asy" [edit=sysop:move=sysop]

← Older revision	Revision as of 18:07, 29 December 2010
(No difference)