5oln - Revision history

OCA at 16:54, 13 December 2023

2023-12-13T16:54:00Z

← Older revision		Revision as of 16:54, 13 December 2023
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	==X-Ray Structure of the Complex Pyrimidine-nucleoside phosphorylase from Bacillus subtilis at 1.88 A==		==X-Ray Structure of the Complex Pyrimidine-nucleoside phosphorylase from Bacillus subtilis at 1.88 A==
	<StructureSection load='5oln' size='340' side='right' caption='[[5oln]], [[Resolution\|resolution]] 1.88Å' scene=''>		<StructureSection load='5oln' size='340' side='right'caption='[[5oln]], [[Resolution\|resolution]] 1.88Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[5oln]] is a 2 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Bacsu Bacsu~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5OLN OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5OLN FirstGlance]. <br>		<table><tr><td colspan='2'>[[5oln]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Bacillus_subtilis_subsp._subtilis_str._168 Bacillus subtilis subsp. subtilis str. 168]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5OLN OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5OLN FirstGlance]. <br>
	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat"~~><scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=IMD:IMIDAZOLE'>IMD</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</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]] 1.88Å</td></tr>
	~~<tr~~ id~~='related'><td class~~="~~sblockLbl~~">~~<b>~~[[~~Related_structure~~\|~~Related:]]</b></td><td class="sblockDat">[[5ep8\|5ep8~~]]</td></tr>		<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=IMD:IMIDAZOLE'>IMD</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
	<tr id='~~gene~~'><td class="sblockLbl"><b>[[~~Gene~~\|~~Gene~~:]]</b></td><td class="sblockDat">~~pdp, BSU39400 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode~~=~~Info&srchmode~~=~~5&id=224308 BACSU])</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=5oln FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5oln OCA], [https://pdbe.org/5oln PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5oln RCSB], [https://www.ebi.ac.uk/pdbsum/5oln PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5oln ProSAT]</span></td></tr>
	<~~tr id~~='~~activity'><td class~~=~~"sblockLbl"><b>Activity~~:~~</b~~></td><~~td class~~=~~"sblockDat"><span class~~=~~'plainlinks~~'>~~[http://en.wikipedia.org/wiki/Pyrimidine-nucleoside_phosphorylase Pyrimidine-nucleoside phosphorylase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.4.2.2 2.4.2.2]~~ </~~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=5oln FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5oln OCA], [~~http~~://pdbe.org/5oln PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5oln RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5oln PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5oln ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
	[~~[http~~://www.uniprot.org/uniprot/PDP_BACSU PDP_BACSU]] Catalyzes phosphorolysis of the pyrimidine nucleosides uridine, thymidine and 2'-deoxyuridine with the formation of the corresponding pyrimidine base and ribose-1-phosphate.[UniProtKB:P77836]<ref>PMID:8550462</ref>		[https://www.uniprot.org/uniprot/PDP_BACSU PDP_BACSU] Catalyzes phosphorolysis of the pyrimidine nucleosides uridine, thymidine and 2'-deoxyuridine with the formation of the corresponding pyrimidine base and ribose-1-phosphate.[UniProtKB:P77836]<ref>PMID:8550462</ref>
	<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: ~~Bacsu~~]]		[[Category: Bacillus subtilis subsp. subtilis str. 168]]
	[[Category: ~~Pyrimidine-nucleoside phosphorylase~~]]		[[Category: Large Structures]]
	[[Category: Balaev~~, V V~~]]		[[Category: Balaev VV]]
	[[Category: Betzel, C]]		[[Category: Betzel C]]
	[[Category: Gabdoulkhakov~~, A G~~]]		[[Category: Gabdoulkhakov AG]]
	[[Category: Lashkov~~, A A~~]]		[[Category: Lashkov AA]]
	[[Category: Prokofev~~, I I]]~~		[[Category: Prokofev II]]
	~~[[Category: Np-2 superfamily]]~~
	~~[[Category: Transferase~~]]

OCA at 06:05, 11 July 2018

2018-07-11T06:05:13Z

← Older revision		Revision as of 06:05, 11 July 2018
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	<StructureSection load='5oln' size='340' side='right' caption='[[5oln]], [[Resolution\|resolution]] 1.88Å' scene=''>		<StructureSection load='5oln' size='340' side='right' caption='[[5oln]], [[Resolution\|resolution]] 1.88Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[5oln]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5OLN OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5OLN FirstGlance]. <br>		<table><tr><td colspan='2'>[[5oln]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Bacsu Bacsu]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5OLN OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5OLN FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=IMD:IMIDAZOLE'>IMD</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=IMD:IMIDAZOLE'>IMD</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5ep8\|5ep8]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5ep8\|5ep8]]</td></tr>
			<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">pdp, BSU39400 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=224308 BACSU])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Pyrimidine-nucleoside_phosphorylase Pyrimidine-nucleoside phosphorylase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.4.2.2 2.4.2.2] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Pyrimidine-nucleoside_phosphorylase Pyrimidine-nucleoside phosphorylase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.4.2.2 2.4.2.2] </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=5oln FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5oln OCA], [http://pdbe.org/5oln PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5oln RCSB], [http://www.ebi.ac.uk/pdbsum/5oln PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5oln 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=5oln FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5oln OCA], [http://pdbe.org/5oln PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5oln RCSB], [http://www.ebi.ac.uk/pdbsum/5oln PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5oln ProSAT]</span></td></tr>
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	== Function ==		== Function ==
	[[http://www.uniprot.org/uniprot/PDP_BACSU PDP_BACSU]] Catalyzes phosphorolysis of the pyrimidine nucleosides uridine, thymidine and 2'-deoxyuridine with the formation of the corresponding pyrimidine base and ribose-1-phosphate.[UniProtKB:P77836]<ref>PMID:8550462</ref>		[[http://www.uniprot.org/uniprot/PDP_BACSU PDP_BACSU]] Catalyzes phosphorolysis of the pyrimidine nucleosides uridine, thymidine and 2'-deoxyuridine with the formation of the corresponding pyrimidine base and ribose-1-phosphate.[UniProtKB:P77836]<ref>PMID:8550462</ref>
			<div style="background-color:#fffaf0;">
			== Publication Abstract from PubMed ==
			Pyrimidine-nucleoside phosphorylase catalyzes the phosphorolytic cleavage of thymidine and uridine with equal activity. Investigation of this protein is essential for anticancer drug design. Here, the structure of this protein from Bacillus subtilis in complex with imidazole and sulfate is reported at 1.9 A resolution, which is an improvement on the previously reported structure at 2.6 A resolution. The localization and position of imidazole in the nucleoside-binding site reflects the possible binding of ligands that possess an imidazole ring.

			Crystal structure of pyrimidine-nucleoside phosphorylase from Bacillus subtilis in complex with imidazole and sulfate.,Balaev VV, Prokofev II, Gabdoulkhakov AG, Betzel C, Lashkov AA Acta Crystallogr F Struct Biol Commun. 2018 Apr 1;74(Pt 4):193-197. doi:, 10.1107/S2053230X18002935. Epub 2018 Mar 22. PMID:29633966<ref>PMID:29633966</ref>

			From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
			</div>
			<div class="pdbe-citations 5oln" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
			[[Category: Bacsu]]
	[[Category: Pyrimidine-nucleoside phosphorylase]]		[[Category: Pyrimidine-nucleoside phosphorylase]]
	[[Category: Balaev, V V]]		[[Category: Balaev, V V]]

OCA at 05:37, 18 April 2018

2018-04-18T05:37:12Z

← Older revision		Revision as of 05:37, 18 April 2018
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	~~'''Unreleased structure'''~~

	~~The entry~~ 5oln ~~is ON HOLD until Paper Publication~~		==X-Ray Structure of the Complex Pyrimidine-nucleoside phosphorylase from Bacillus subtilis at 1.88 A==
			<StructureSection load='5oln' size='340' side='right' caption='[[5oln]], [[Resolution\|resolution]] 1.88Å' scene=''>
	~~Authors~~: ~~Balaev, V~~.V., ~~Prokofev~~, I.I., ~~Gabdoulkhakov~~, A.G., ~~Betzel~~, C., ~~Lashkov~~, A.A.		== Structural highlights ==
			<table><tr><td colspan='2'>[[5oln]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5OLN OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5OLN FirstGlance]. <br>
	~~Description~~: X-~~Ray Structure~~ of the ~~Complex~~ Pyrimidine-nucleoside phosphorylase ~~from Bacillus subtilis at 1.88 A~~		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=IMD:IMIDAZOLE'>IMD</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
	[[Category: ~~Unreleased Structures~~]]		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5ep8\|5ep8]]</td></tr>
			<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Pyrimidine-nucleoside_phosphorylase Pyrimidine-nucleoside phosphorylase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.4.2.2 2.4.2.2] </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=5oln FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5oln OCA], [http://pdbe.org/5oln PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5oln RCSB], [http://www.ebi.ac.uk/pdbsum/5oln PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5oln ProSAT]</span></td></tr>
			</table>
			== Function ==
			[[http://www.uniprot.org/uniprot/PDP_BACSU PDP_BACSU]] Catalyzes phosphorolysis of the pyrimidine nucleosides uridine, thymidine and 2'-deoxyuridine with the formation of the corresponding pyrimidine base and ribose-1-phosphate.[UniProtKB:P77836]<ref>PMID:8550462</ref>
			== References ==
			<references/>
			__TOC__
			</StructureSection>
			[[Category: Pyrimidine-nucleoside phosphorylase]]
			[[Category: Balaev, V V]]
	[[Category: Betzel, C]]		[[Category: Betzel, C]]
	[[Category: ~~Balaev~~, ~~V.V~~]]		[[Category: Gabdoulkhakov, A G]]
	[[Category: Lashkov, A.A]]		[[Category: Lashkov, A A]]
	[[Category: Prokofev, I.I]]		[[Category: Prokofev, I I]]
	[[Category: ~~Gabdoulkhakov, A.G~~]]		[[Category: Np-2 superfamily]]
			[[Category: Transferase]]

OCA at 05:05, 28 March 2018

2018-03-28T05:05:33Z

← Older revision		Revision as of 05:05, 28 March 2018
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

	The entry 5oln is ON HOLD		The entry 5oln is ON HOLD until Paper Publication

	Authors: Balaev, V.V., Prokofev, I.I., Gabdoulkhakov, A.G., Betzel, C., Lashkov, A.A.		Authors: Balaev, V.V., Prokofev, I.I., Gabdoulkhakov, A.G., Betzel, C., Lashkov, A.A.
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	Description: X-Ray Structure of the Complex Pyrimidine-nucleoside phosphorylase from Bacillus subtilis at 1.88 A		Description: X-Ray Structure of the Complex Pyrimidine-nucleoside phosphorylase from Bacillus subtilis at 1.88 A
	[[Category: Unreleased Structures]]		[[Category: Unreleased Structures]]
	~~[[Category: Prokofev, I.I]]~~
	[[Category: Betzel, C]]		[[Category: Betzel, C]]
			[[Category: Balaev, V.V]]
	[[Category: Lashkov, A.A]]		[[Category: Lashkov, A.A]]
	[[Category: ~~Balaev~~, V.V]]		[[Category: Prokofev, I.I]]
	[[Category: Gabdoulkhakov, A.G]]		[[Category: Gabdoulkhakov, A.G]]

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

2017-09-27T12:34:00Z

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

← Older revision	Revision as of 12:34, 27 September 2017
(No difference)

OCA: New page: '''Unreleased structure''' The entry 5oln is ON HOLD Authors: Balaev, V.V., Prokofev, I.I., Gabdoulkhakov, A.G., Betzel, C., Lashkov, A.A. Description: X-Ray Structure of the Complex P...

2017-09-27T12:33:59Z

New page: '''Unreleased structure''' The entry 5oln is ON HOLD Authors: Balaev, V.V., Prokofev, I.I., Gabdoulkhakov, A.G., Betzel, C., Lashkov, A.A. Description: X-Ray Structure of the Complex P...

New page

'''Unreleased structure'''

The entry 5oln is ON HOLD

Authors: Balaev, V.V., Prokofev, I.I., Gabdoulkhakov, A.G., Betzel, C., Lashkov, A.A.

Description: X-Ray Structure of the Complex Pyrimidine-nucleoside phosphorylase from Bacillus subtilis at 1.88 A
[[Category: Unreleased Structures]]
[[Category: Prokofev, I.I]]
[[Category: Betzel, C]]
[[Category: Lashkov, A.A]]
[[Category: Balaev, V.V]]
[[Category: Gabdoulkhakov, A.G]]