1ytd - Revision history

OCA at 08:06, 15 May 2024

2024-05-15T08:06:03Z

←Older revision		Revision as of 08:06, 15 May 2024
Line 3:		Line 3:
	<StructureSection load='1ytd' size='340' side='right'caption='[[1ytd]], [[Resolution\|resolution]] 2.80Å' scene=''>		<StructureSection load='1ytd' size='340' side='right'caption='[[1ytd]], [[Resolution\|resolution]] 2.80Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1ytd]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/~~Theac Theac~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1YTD OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1YTD FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1ytd]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Thermoplasma_acidophilum_DSM_1728 Thermoplasma acidophilum DSM 1728]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1YTD OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1YTD 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;'>[[1yte\|1yte]]~~, [[~~1ytk~~\|~~1ytk~~]]~~</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]] 2.8Å</td></tr>
-	~~<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en~~.~~wikipedia.org/wiki/Nicotinate_phosphoribosyltransferase Nicotinate phosphoribosyltransferase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=6.3.4.21 6.3.4.21] </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=1ytd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1ytd OCA], [https://pdbe.org/1ytd PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1ytd RCSB], [https://www.ebi.ac.uk/pdbsum/1ytd PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1ytd ProSAT], [https://www.topsan.org/Proteins/BSGC/1ytd TOPSAN]</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=1ytd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1ytd OCA], [https://pdbe.org/1ytd PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1ytd RCSB], [https://www.ebi.ac.uk/pdbsum/1ytd PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1ytd ProSAT], [https://www.topsan.org/Proteins/BSGC/1ytd TOPSAN]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[https://www.uniprot.org/uniprot/PNCB_THEAC PNCB_THEAC]] Catalyzes the transfer of the phosphoribosyl moiety of phosphoribosylpyrophosphate (PRPP) onto nicotinate (NA) to yield nicotinate mononucleotide (NAMN), an intermediate in the biosynthesis of NAD. Catalyzes the synthesis of beta-nicotinate D-ribonucleotide from nicotinate and 5-phospho-D-ribose 1-phosphate at the expense of ATP.	+	[https://www.uniprot.org/uniprot/PNCB_THEAC PNCB_THEAC] Catalyzes the transfer of the phosphoribosyl moiety of phosphoribosylpyrophosphate (PRPP) onto nicotinate (NA) to yield nicotinate mononucleotide (NAMN), an intermediate in the biosynthesis of NAD. Catalyzes the synthesis of beta-nicotinate D-ribonucleotide from nicotinate and 5-phospho-D-ribose 1-phosphate at the expense of ATP.
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 37:		Line 36:
	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Nicotinate phosphoribosyltransferase]]~~	+	[[Category: Thermoplasma acidophilum DSM 1728]]
-	~~[[Category: Theac]]~~	+	[[Category: Shin DH]]
-	~~[[Category: Structural genomic~~]]	+
-	[[Category: Shin~~, D H]]~~	+
-	~~[[Category: Bsgc]]~~	+
-	~~[[Category: PSI, Protein structure initiative]]~~	+
-	~~[[Category: Transferase]]~~	+
-	~~[[Category: Type ii phosphoribosyltransferase]]~~	+
-	~~[[Category: Zinc-knuckle motif~~]]	+

OCA at 16:32, 3 November 2021

2021-11-03T16:32:36Z

←Older revision		Revision as of 16:32, 3 November 2021
Line 3:		Line 3:
	<StructureSection load='1ytd' size='340' side='right'caption='[[1ytd]], [[Resolution\|resolution]] 2.80Å' scene=''>		<StructureSection load='1ytd' size='340' side='right'caption='[[1ytd]], [[Resolution\|resolution]] 2.80Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1ytd]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Theac Theac]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1YTD OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=1YTD FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1ytd]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Theac Theac]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1YTD OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1YTD FirstGlance]. <br>
-	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1yte\|1yte]], [[1ytk\|1ytk]]</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;'>[[1yte\|1yte]], [[1ytk\|1ytk]]</div></td></tr>
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://en.wikipedia.org/wiki/Nicotinate_phosphoribosyltransferase Nicotinate phosphoribosyltransferase], with EC number [~~http~~://www.brenda-enzymes.info/php/result_flat.php4?ecno=6.3.4.21 6.3.4.21] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/Nicotinate_phosphoribosyltransferase Nicotinate phosphoribosyltransferase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=6.3.4.21 6.3.4.21] </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=1ytd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1ytd OCA], [~~http~~://pdbe.org/1ytd PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=1ytd RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/1ytd PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=1ytd ProSAT], [~~http~~://www.topsan.org/Proteins/BSGC/1ytd TOPSAN]</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=1ytd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1ytd OCA], [https://pdbe.org/1ytd PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1ytd RCSB], [https://www.ebi.ac.uk/pdbsum/1ytd PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1ytd ProSAT], [https://www.topsan.org/Proteins/BSGC/1ytd TOPSAN]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[~~http~~://www.uniprot.org/uniprot/PNCB_THEAC PNCB_THEAC]] Catalyzes the transfer of the phosphoribosyl moiety of phosphoribosylpyrophosphate (PRPP) onto nicotinate (NA) to yield nicotinate mononucleotide (NAMN), an intermediate in the biosynthesis of NAD. Catalyzes the synthesis of beta-nicotinate D-ribonucleotide from nicotinate and 5-phospho-D-ribose 1-phosphate at the expense of ATP.	+	[[https://www.uniprot.org/uniprot/PNCB_THEAC PNCB_THEAC]] Catalyzes the transfer of the phosphoribosyl moiety of phosphoribosylpyrophosphate (PRPP) onto nicotinate (NA) to yield nicotinate mononucleotide (NAMN), an intermediate in the biosynthesis of NAD. Catalyzes the synthesis of beta-nicotinate D-ribonucleotide from nicotinate and 5-phospho-D-ribose 1-phosphate at the expense of ATP.
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]

OCA at 17:14, 29 January 2020

2020-01-29T17:14:38Z

←Older revision		Revision as of 17:14, 29 January 2020
Line 1:		Line 1:

	==Crystal structure of a nicotinate phosphoribosyltransferase from Thermoplasma acidophilum, Native Structure==		==Crystal structure of a nicotinate phosphoribosyltransferase from Thermoplasma acidophilum, Native Structure==
-	<StructureSection load='1ytd' size='340' side='right' caption='[[1ytd]], [[Resolution\|resolution]] 2.80Å' scene=''>	+	<StructureSection load='1ytd' size='340' side='right'caption='[[1ytd]], [[Resolution\|resolution]] 2.80Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[1ytd]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Theac Theac]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1YTD OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1YTD FirstGlance]. <br>		<table><tr><td colspan='2'>[[1ytd]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Theac Theac]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1YTD OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1YTD FirstGlance]. <br>
Line 31:		Line 31:

	==See Also==		==See Also==
-	*[[Phosphoribosyltransferase\|Phosphoribosyltransferase]]	+	*[[Phosphoribosyltransferase 3D structures\|Phosphoribosyltransferase 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Large Structures]]
	[[Category: Nicotinate phosphoribosyltransferase]]		[[Category: Nicotinate phosphoribosyltransferase]]
	[[Category: Theac]]		[[Category: Theac]]

OCA at 06:57, 25 April 2018

2018-04-25T06:57:26Z

←Older revision		Revision as of 06:57, 25 April 2018
Line 1:		Line 1:
		+
	==Crystal structure of a nicotinate phosphoribosyltransferase from Thermoplasma acidophilum, Native Structure==		==Crystal structure of a nicotinate phosphoribosyltransferase from Thermoplasma acidophilum, Native Structure==
	<StructureSection load='1ytd' size='340' side='right' caption='[[1ytd]], [[Resolution\|resolution]] 2.80Å' scene=''>		<StructureSection load='1ytd' size='340' side='right' caption='[[1ytd]], [[Resolution\|resolution]] 2.80Å' scene=''>
Line 5:		Line 6:
	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1yte\|1yte]], [[1ytk\|1ytk]]</td></tr>		</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1yte\|1yte]], [[1ytk\|1ytk]]</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Nicotinate_phosphoribosyltransferase Nicotinate phosphoribosyltransferase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=6.3.4.21 6.3.4.21] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Nicotinate_phosphoribosyltransferase Nicotinate phosphoribosyltransferase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=6.3.4.21 6.3.4.21] </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=1ytd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1ytd OCA], [http://pdbe.org/1ytd PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1ytd RCSB], [http://www.ebi.ac.uk/pdbsum/1ytd PDBsum], [http://www.topsan.org/Proteins/BSGC/1ytd TOPSAN]</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=1ytd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1ytd OCA], [http://pdbe.org/1ytd PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1ytd RCSB], [http://www.ebi.ac.uk/pdbsum/1ytd PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1ytd ProSAT], [http://www.topsan.org/Proteins/BSGC/1ytd TOPSAN]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 13:		Line 14:
	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
-	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/yt/1ytd_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/yt/1ytd_consurf.spt"</scriptWhenChecked>
	<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>		<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
	<text>to colour the structure by Evolutionary Conservation</text>		<text>to colour the structure by Evolutionary Conservation</text>
	</jmolCheckbox>		</jmolCheckbox>
-	</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/~~chain_selection~~.php?pdb_ID=~~2ata~~ ConSurf].	+	</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/main_output.php?pdb_ID=1ytd ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 14:46, 11 September 2015

2015-09-11T14:46:52Z

←Older revision		Revision as of 14:46, 11 September 2015
Line 2:		Line 2:
	<StructureSection load='1ytd' size='340' side='right' caption='[[1ytd]], [[Resolution\|resolution]] 2.80Å' scene=''>		<StructureSection load='1ytd' size='340' side='right' caption='[[1ytd]], [[Resolution\|resolution]] 2.80Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1ytd]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Thermoplasma_acidophilum Thermoplasma acidophilum~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1YTD OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1YTD FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1ytd]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Theac Theac]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1YTD OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1YTD FirstGlance]. <br>
	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1yte\|1yte]], [[1ytk\|1ytk]]</td></tr>		</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1yte\|1yte]], [[1ytk\|1ytk]]</td></tr>
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Nicotinate_phosphoribosyltransferase Nicotinate phosphoribosyltransferase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.4.2.~~11 2~~.4.~~2.11~~] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Nicotinate_phosphoribosyltransferase Nicotinate phosphoribosyltransferase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=6.3.4.21 6.3.4.21] </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=1ytd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1ytd OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1ytd RCSB], [http://www.ebi.ac.uk/pdbsum/1ytd PDBsum], [http://www.topsan.org/Proteins/BSGC/1ytd TOPSAN]</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=1ytd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1ytd OCA], [http://pdbe.org/1ytd PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1ytd RCSB], [http://www.ebi.ac.uk/pdbsum/1ytd PDBsum], [http://www.topsan.org/Proteins/BSGC/1ytd TOPSAN]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/PNCB_THEAC PNCB_THEAC]] Catalyzes the transfer of the phosphoribosyl moiety of phosphoribosylpyrophosphate (PRPP) onto nicotinate (NA) to yield nicotinate mononucleotide (NAMN), an intermediate in the biosynthesis of NAD. Catalyzes the synthesis of beta-nicotinate D-ribonucleotide from nicotinate and 5-phospho-D-ribose 1-phosphate at the expense of ATP.
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 25:		Line 27:
	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 1ytd" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
Line 33:		Line 36:
	</StructureSection>		</StructureSection>
	[[Category: Nicotinate phosphoribosyltransferase]]		[[Category: Nicotinate phosphoribosyltransferase]]
-	[[Category: ~~Thermoplasma acidophilum~~]]	+	[[Category: Theac]]
	[[Category: Structural genomic]]		[[Category: Structural genomic]]
	[[Category: Shin, D H]]		[[Category: Shin, D H]]

OCA at 10:33, 8 January 2015

2015-01-08T10:33:27Z

←Older revision		Revision as of 10:33, 8 January 2015
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[1ytd]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Thermoplasma_acidophilum Thermoplasma acidophilum]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1YTD OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1YTD FirstGlance]. <br>		<table><tr><td colspan='2'>[[1ytd]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Thermoplasma_acidophilum Thermoplasma acidophilum]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1YTD OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1YTD FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1yte\|1yte]], [[1ytk\|1ytk]]</td></tr>	+	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1yte\|1yte]], [[1ytk\|1ytk]]</td></tr>
-	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Nicotinate_phosphoribosyltransferase Nicotinate phosphoribosyltransferase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.4.2.11 2.4.2.11] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Nicotinate_phosphoribosyltransferase Nicotinate phosphoribosyltransferase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.4.2.11 2.4.2.11] </span></td></tr>
-	<tr><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1ytd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1ytd OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1ytd RCSB], [http://www.ebi.ac.uk/pdbsum/1ytd PDBsum], [http://www.topsan.org/Proteins/BSGC/1ytd TOPSAN]</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=1ytd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1ytd OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1ytd RCSB], [http://www.ebi.ac.uk/pdbsum/1ytd PDBsum], [http://www.topsan.org/Proteins/BSGC/1ytd TOPSAN]</span></td></tr>
-	<table>	+	</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 34:		Line 34:
	[[Category: Nicotinate phosphoribosyltransferase]]		[[Category: Nicotinate phosphoribosyltransferase]]
	[[Category: Thermoplasma acidophilum]]		[[Category: Thermoplasma acidophilum]]
-	[[Category: ~~BSGC, Berkeley~~ Structural ~~Genomics Center.~~]]	+	[[Category: Structural genomic]]
-	[[Category: Shin, D H~~.]]~~	+	[[Category: Shin, D H]]
-	~~[[Category: Berkeley structural genomics center~~]]	+
	[[Category: Bsgc]]		[[Category: Bsgc]]
-	[[Category: ~~Nicotinate phosphoribosyltransferase]]~~	+	[[Category: PSI, Protein structure initiative]]
-	~~[[Category:~~ Protein structure initiative]]	+
-	~~[[Category: Psi]]~~	+
-	~~[[Category: Structural genomic~~]]	+
	[[Category: Transferase]]		[[Category: Transferase]]
	[[Category: Type ii phosphoribosyltransferase]]		[[Category: Type ii phosphoribosyltransferase]]
	[[Category: Zinc-knuckle motif]]		[[Category: Zinc-knuckle motif]]

OCA at 21:05, 29 September 2014

2014-09-29T21:05:40Z

←Older revision		Revision as of 21:05, 29 September 2014
Line 1:		Line 1:
-	[[~~Image:~~1ytd.~~png~~\|~~left~~\|200px]]	+	==Crystal structure of a nicotinate phosphoribosyltransferase from Thermoplasma acidophilum, Native Structure==
		+	<StructureSection load='1ytd' size='340' side='right' caption='[[1ytd]], [[Resolution\|resolution]] 2.80Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[1ytd]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Thermoplasma_acidophilum Thermoplasma acidophilum]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1YTD OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1YTD FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1yte\|1yte]], [[1ytk\|1ytk]]</td></tr>
		+	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Nicotinate_phosphoribosyltransferase Nicotinate phosphoribosyltransferase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.4.2.11 2.4.2.11] </span></td></tr>
		+	<tr><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1ytd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1ytd OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1ytd RCSB], [http://www.ebi.ac.uk/pdbsum/1ytd PDBsum], [http://www.topsan.org/Proteins/BSGC/1ytd TOPSAN]</span></td></tr>
		+	<table>
		+	== Evolutionary Conservation ==
		+	[[Image:Consurf_key_small.gif\|200px\|right]]
		+	Check<jmol>
		+	<jmolCheckbox>
		+	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/yt/1ytd_consurf.spt"</scriptWhenChecked>
		+	<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
		+	<text>to colour the structure by Evolutionary Conservation</text>
		+	</jmolCheckbox>
		+	</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/chain_selection.php?pdb_ID=2ata ConSurf].
		+	<div style="clear:both"></div>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	We have determined the crystal structure of nicotinate phosphoribosyltransferase from Themoplasma acidophilum (TaNAPRTase). The TaNAPRTase has three domains, an N-terminal domain, a central functional domain, and a unique C-terminal domain. The crystal structure revealed that the functional domain has a type II phosphoribosyltransferase fold that may be a common architecture for both nicotinic acid and quinolinic acid (QA) phosphoribosyltransferases (PRTase) despite low sequence similarity between them. Unlike QAPRTase, TaNAPRTase has a unique extra C-terminal domain containing a zinc knuckle-like motif containing 4 cysteines. The TaNAPRTase forms a trimer of dimers in the crystal. The active site pocket is formed at dimer interfaces. The complex structures with phosphoribosylpyrophosphate (PRPP) and nicotinate mononucleotide (NAMN) showed, surprisingly, that functional residues lining on the active site of TaNAPRTase are quite different from those of QAPRTase, although their substrates are quite similar to each other. The phosphate moiety of PRPP and NAMN is anchored to the phosphate-binding loops formed by backbone amides, as found in many alpha/beta barrel enzymes. The pyrophosphate moiety of PRPP is located at the entrance of the active site pocket, whereas the nicotinate moiety of NAMN is located deep inside. Interestingly, the nicotinate moiety of NAMN is intercalated between highly conserved aromatic residues Tyr(21) and Phe(138). Careful structural analyses combined with other NAPRTase sequence subfamilies reveal that TaNAPRTase represents a unique sequence subfamily of NAPRTase. The structures of TaNAPRTase also provide valuable insight for other sequence subfamilies such as pre-B cell colony-enhancing factor, known to have nicotinamide phosphoribosyltransferase activity.

-	~~{{STRUCTURE_1ytd\| PDB=1ytd \| SCENE= }}~~	+	Crystal structure of a nicotinate phosphoribosyltransferase from Thermoplasma acidophilum.,Shin DH, Oganesyan N, Jancarik J, Yokota H, Kim R, Kim SH J Biol Chem. 2005 May 6;280(18):18326-35. Epub 2005 Mar 6. PMID:15753098<ref>PMID:15753098</ref>

-	~~===Crystal structure of a nicotinate phosphoribosyltransferase from Thermoplasma acidophilum~~, ~~Native Structure===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_15753098}}~~	+
-		+
-	~~==About this Structure==~~	+
-	~~[[1ytd]] is~~ a ~~1 chain structure with sequence from [http://en~~.~~wikipedia~~.~~org/wiki/Thermoplasma_acidophilum Thermoplasma acidophilum]~~. ~~Full crystallographic information is available from [http:~~/~~/oca.weizmann.ac.il/oca-bin/ocashort?id=1YTD OCA].~~	+

	==See Also==		==See Also==
	*[[Phosphoribosyltransferase\|Phosphoribosyltransferase]]		*[[Phosphoribosyltransferase\|Phosphoribosyltransferase]]
-		+	== References ==
-	==~~Reference~~==	+	<references/>
-	<~~ref group="xtra">PMID:015753098<~~/~~ref~~><~~references group="xtra"~~/>	+	__TOC__
		+	</StructureSection>
	[[Category: Nicotinate phosphoribosyltransferase]]		[[Category: Nicotinate phosphoribosyltransferase]]
	[[Category: Thermoplasma acidophilum]]		[[Category: Thermoplasma acidophilum]]

OCA: Protected "1ytd" [edit=sysop:move=sysop]

2013-01-05T17:39:20Z

Protected "1ytd" [edit=sysop:move=sysop]

←Older revision

Revision as of 17:39, 5 January 2013

OCA at 17:39, 5 January 2013

2013-01-05T17:39:16Z

←Older revision		Revision as of 17:39, 5 January 2013
Line 1:		Line 1:
-	{{Seed}}
	[[Image:1ytd.png\|left\|200px]]		[[Image:1ytd.png\|left\|200px]]

-	<!--
-	The line below this paragraph, containing "STRUCTURE_1ytd", creates the "Structure Box" on the page.
-	You may change the PDB parameter (which sets the PDB file loaded into the applet)
-	or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
-	or leave the SCENE parameter empty for the default display.
-	-->
	{{STRUCTURE_1ytd\| PDB=1ytd \| SCENE= }}		{{STRUCTURE_1ytd\| PDB=1ytd \| SCENE= }}

	===Crystal structure of a nicotinate phosphoribosyltransferase from Thermoplasma acidophilum, Native Structure===		===Crystal structure of a nicotinate phosphoribosyltransferase from Thermoplasma acidophilum, Native Structure===

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_15753098}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 15753098 is the PubMed ID number.
-	-->
	{{ABSTRACT_PUBMED_15753098}}		{{ABSTRACT_PUBMED_15753098}}

	==About this Structure==		==About this Structure==
-	~~1YTD~~ is a 1 chain structure of sequence from [http://en.wikipedia.org/wiki/~~Thermoplasma_acidophilum_dsm_1728~~ Thermoplasma acidophilum ~~dsm 1728~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1YTD OCA].	+	[[1ytd]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Thermoplasma_acidophilum Thermoplasma acidophilum]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1YTD OCA].
		+
		+	==See Also==
		+	*[[Phosphoribosyltransferase\|Phosphoribosyltransferase]]

	==Reference==		==Reference==
-	<ref group="xtra">PMID:~~15753098~~</ref><references group="xtra"/>	+	<ref group="xtra">PMID:015753098</ref><references group="xtra"/>
	[[Category: Nicotinate phosphoribosyltransferase]]		[[Category: Nicotinate phosphoribosyltransferase]]
-	[[Category: Thermoplasma acidophilum ~~dsm 1728~~]]	+	[[Category: Thermoplasma acidophilum]]
	[[Category: BSGC, Berkeley Structural Genomics Center.]]		[[Category: BSGC, Berkeley Structural Genomics Center.]]
	[[Category: Shin, D H.]]		[[Category: Shin, D H.]]
	[[Category: Berkeley structural genomics center]]		[[Category: Berkeley structural genomics center]]
	[[Category: Bsgc]]		[[Category: Bsgc]]
-	[[Category: Crystal structure]]
	[[Category: Nicotinate phosphoribosyltransferase]]		[[Category: Nicotinate phosphoribosyltransferase]]
	[[Category: Protein structure initiative]]		[[Category: Protein structure initiative]]
	[[Category: Psi]]		[[Category: Psi]]
	[[Category: Structural genomic]]		[[Category: Structural genomic]]
		+	[[Category: Transferase]]
	[[Category: Type ii phosphoribosyltransferase]]		[[Category: Type ii phosphoribosyltransferase]]
	[[Category: Zinc-knuckle motif]]		[[Category: Zinc-knuckle motif]]
-
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Feb 18 00:48:35 2009''

OCA at 22:48, 17 February 2009

2009-02-17T22:48:36Z

←Older revision		Revision as of 22:48, 17 February 2009
Line 23:		Line 23:

	==Reference==		==Reference==
-	Crystal structure of a nicotinate phosphoribosyltransferase from Thermoplasma acidophilum., Shin DH, Oganesyan N, Jancarik J, Yokota H, Kim R, Kim SH, J Biol Chem. 2005 May 6;280(18):18326-35. Epub 2005 Mar 6. PMID:~~[http:~~//~~www.ncbi.nlm.nih.gov/pubmed/15753098 15753098]~~	+	<ref group="xtra">PMID:15753098</ref><references group="xtra"/>
	[[Category: Nicotinate phosphoribosyltransferase]]		[[Category: Nicotinate phosphoribosyltransferase]]
	[[Category: Thermoplasma acidophilum dsm 1728]]		[[Category: Thermoplasma acidophilum dsm 1728]]
Line 38:		Line 38:
	[[Category: Zinc-knuckle motif]]		[[Category: Zinc-knuckle motif]]

-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on ~~Sun Nov 16 16~~:36:~~11 2008~~''	+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Feb 18 00:48:35 2009''