4x5d - Revision history

OCA at 07:41, 27 September 2023

2023-09-27T07:41:23Z

←Older revision		Revision as of 07:41, 27 September 2023
Line 4:		Line 4:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[4x5d]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Mycobacterium_tuberculosis Mycobacterium tuberculosis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4X5D OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4X5D FirstGlance]. <br>		<table><tr><td colspan='2'>[[4x5d]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Mycobacterium_tuberculosis Mycobacterium tuberculosis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4X5D OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4X5D FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=BE2:2-AMINOBENZOIC+ACID'>BE2</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=IMD:IMIDAZOLE'>IMD</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]] 2.3Å</td></tr>
		+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=BE2:2-AMINOBENZOIC+ACID'>BE2</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=IMD:IMIDAZOLE'>IMD</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=4x5d FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4x5d OCA], [https://pdbe.org/4x5d PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4x5d RCSB], [https://www.ebi.ac.uk/pdbsum/4x5d PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4x5d 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=4x5d FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4x5d OCA], [https://pdbe.org/4x5d PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4x5d RCSB], [https://www.ebi.ac.uk/pdbsum/4x5d PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4x5d ProSAT]</span></td></tr>
	</table>		</table>

OCA at 21:13, 12 April 2023

2023-04-12T21:13:31Z

←Older revision		Revision as of 21:13, 12 April 2023
Line 1:		Line 1:

	==Anthranilate phosphoribosyltransferase variant R193A from Mycobacterium tuberculosis with anthranilate bound==		==Anthranilate phosphoribosyltransferase variant R193A from Mycobacterium tuberculosis with anthranilate bound==
-	<StructureSection load='4x5d' size='340' side='right' caption='[[4x5d]], [[Resolution\|resolution]] 2.30Å' scene=''>	+	<StructureSection load='4x5d' size='340' side='right'caption='[[4x5d]], [[Resolution\|resolution]] 2.30Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4x5d]] is a 2 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~"bacillus_tuberculosis"_(zopf_1883)_klein_1884 "bacillus~~ tuberculosis~~" (zopf 1883) klein 1884~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4X5D OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=4X5D FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4x5d]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Mycobacterium_tuberculosis Mycobacterium tuberculosis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4X5D OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4X5D FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=BE2:2-AMINOBENZOIC+ACID'>BE2</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=IMD:IMIDAZOLE'>IMD</scene~~></td></tr>~~	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=BE2:2-AMINOBENZOIC+ACID'>BE2</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=IMD:IMIDAZOLE'>IMD</scene></td></tr>
-	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4x58\|4x58]], [[4x59\|4x59]], [[4x5a\|4x5a]], [[4x5b\|4x5b]], [[4x5c\|4x5c]], [[4x5e\|4x5e]]</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=4x5d FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4x5d OCA], [https://pdbe.org/4x5d PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4x5d RCSB], [https://www.ebi.ac.uk/pdbsum/4x5d PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4x5d ProSAT]</span></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">trpD ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1773 "Bacillus tuberculosis" (Zopf 1883) Klein 1884])</td></tr>	+
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Anthranilate_phosphoribosyltransferase Anthranilate phosphoribosyltransferase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.4.2.18 2.4.2.18] </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=4x5d FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4x5d OCA], [~~http~~://pdbe.org/4x5d PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=4x5d RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/4x5d PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=4x5d ProSAT]</span></td></tr>	+
	</table>		</table>
	== Function ==		== Function ==
-	[~~[http~~://www.uniprot.org/uniprot/~~TRPD_MYCTA TRPD_MYCTA~~]~~] Catalyzes the transfer of the phosphoribosyl group of 5-phosphorylribose-1-pyrophosphate (PRPP) to anthranilate to yield N-(5'-phosphoribosyl)-anthranilate (PRA).~~	+	[https://www.uniprot.org/uniprot/TRPD_MYCTU TRPD_MYCTU]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 21:		Line 18:
	</div>		</div>
	<div class="pdbe-citations 4x5d" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 4x5d" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Phosphoribosyltransferase 3D structures\|Phosphoribosyltransferase 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Anthranilate phosphoribosyltransferase]]~~	+	[[Category: Large Structures]]
-	~~[[Category: Cookson, T V.M]]~~	+
-	~~[[Category: Lott, J S]]~~	+
-	~~[[Category: Parker, E J]]~~	+
-	~~[[Category: Anthranilic acid]]~~	+
-	~~[[Category: Magnesium]]~~	+
-	~~[[Category: Magnesium binding]]~~	+
-	~~[[Category: Mutation~~]]	+
	[[Category: Mycobacterium tuberculosis]]		[[Category: Mycobacterium tuberculosis]]
-	[[Category: ~~Phosphoribosyl pyrophosphate~~]]	+	[[Category: Cookson TVM]]
-	[[Category: ~~Transferase~~]]	+	[[Category: Lott JS]]
-	[[Category: ~~Tryptophan~~]]	+	[[Category: Parker EJ]]

OCA at 15:17, 16 November 2017

2017-11-16T15:17:58Z

←Older revision		Revision as of 15:17, 16 November 2017
Line 1:		Line 1:
		+
	==Anthranilate phosphoribosyltransferase variant R193A from Mycobacterium tuberculosis with anthranilate bound==		==Anthranilate phosphoribosyltransferase variant R193A from Mycobacterium tuberculosis with anthranilate bound==
	<StructureSection load='4x5d' size='340' side='right' caption='[[4x5d]], [[Resolution\|resolution]] 2.30Å' scene=''>		<StructureSection load='4x5d' size='340' side='right' caption='[[4x5d]], [[Resolution\|resolution]] 2.30Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4x5d]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4X5D OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4X5D FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4x5d]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/"bacillus_tuberculosis"_(zopf_1883)_klein_1884 "bacillus tuberculosis" (zopf 1883) klein 1884]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4X5D OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4X5D FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=BE2:2-AMINOBENZOIC+ACID'>BE2</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=IMD:IMIDAZOLE'>IMD</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=BE2:2-AMINOBENZOIC+ACID'>BE2</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=IMD:IMIDAZOLE'>IMD</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4x58\|4x58]], [[4x59\|4x59]], [[4x5a\|4x5a]], [[4x5b\|4x5b]], [[4x5c\|4x5c]], [[4x5e\|4x5e]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4x58\|4x58]], [[4x59\|4x59]], [[4x5a\|4x5a]], [[4x5b\|4x5b]], [[4x5c\|4x5c]], [[4x5e\|4x5e]]</td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">trpD ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1773 "Bacillus tuberculosis" (Zopf 1883) Klein 1884])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Anthranilate_phosphoribosyltransferase Anthranilate phosphoribosyltransferase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.4.2.18 2.4.2.18] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Anthranilate_phosphoribosyltransferase Anthranilate phosphoribosyltransferase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.4.2.18 2.4.2.18] </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=4x5d FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4x5d OCA], [http://pdbe.org/4x5d PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4x5d RCSB], [http://www.ebi.ac.uk/pdbsum/4x5d 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=4x5d FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4x5d OCA], [http://pdbe.org/4x5d PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4x5d RCSB], [http://www.ebi.ac.uk/pdbsum/4x5d PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4x5d ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==

OCA at 07:33, 7 October 2015

2015-10-07T07:33:49Z

←Older revision		Revision as of 07:33, 7 October 2015
Line 1:		Line 1:
-	'''~~Unreleased~~ structure'''	+	==Anthranilate phosphoribosyltransferase variant R193A from Mycobacterium tuberculosis with anthranilate bound==
		+	<StructureSection load='4x5d' size='340' side='right' caption='[[4x5d]], [[Resolution\|resolution]] 2.30Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[4x5d]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4X5D OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4X5D FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=BE2:2-AMINOBENZOIC+ACID'>BE2</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=IMD:IMIDAZOLE'>IMD</scene></td></tr>
		+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4x58\|4x58]], [[4x59\|4x59]], [[4x5a\|4x5a]], [[4x5b\|4x5b]], [[4x5c\|4x5c]], [[4x5e\|4x5e]]</td></tr>
		+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Anthranilate_phosphoribosyltransferase Anthranilate phosphoribosyltransferase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.4.2.18 2.4.2.18] </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=4x5d FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4x5d OCA], [http://pdbe.org/4x5d PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4x5d RCSB], [http://www.ebi.ac.uk/pdbsum/4x5d PDBsum]</span></td></tr>
		+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/TRPD_MYCTA TRPD_MYCTA]] Catalyzes the transfer of the phosphoribosyl group of 5-phosphorylribose-1-pyrophosphate (PRPP) to anthranilate to yield N-(5'-phosphoribosyl)-anthranilate (PRA).
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Anthranilate phosphoribosyltransferase (AnPRT) is essential for the biosynthesis of tryptophan in Mycobacterium tuberculosis (Mtb). This enzyme catalyzes the second committed step in tryptophan biosynthesis, the Mg(2+)-dependent reaction between 5'-phosphoribosyl-1'-pyrophosphate (PRPP) and anthranilate. The roles of residues predicted to be involved in anthranilate binding have been tested by the analysis of six Mtb-AnPRT variant proteins. Kinetic analysis showed that five of six variants were active and identified the conserved residue R193 as being crucial for both anthranilate binding and catalytic function. Crystal structures of these Mtb-AnPRT variants reveal the ability of anthranilate to bind in three sites along an extended anthranilate tunnel and expose the role of the mobile beta2-alpha6 loop in facilitating the enzyme's sequential reaction mechanism. The beta2-alpha6 loop moves sequentially between a "folded" conformation, partially occluding the anthranilate tunnel, via an "open" position to a "closed" conformation, which supports PRPP binding and allows anthranilate access via the tunnel to the active site. The return of the beta2-alpha6 loop to the "folded" conformation completes the catalytic cycle, concordantly allowing the active site to eject the product PRA and rebind anthranilate at the opening of the anthranilate tunnel for subsequent reactions. Multiple anthranilate molecules blocking the anthranilate tunnel prevent the beta2-alpha6 loop from undergoing the conformational changes required for catalysis, thus accounting for the unusual substrate inhibition of this enzyme.

-	~~The entry 4x5d is ON HOLD until Paper Publication~~	+	Structures of Mycobacterium tuberculosis Anthranilate Phosphoribosyltransferase Variants Reveal the Conformational Changes That Facilitate Delivery of the Substrate to the Active Site.,Cookson TV, Evans GL, Castell A, Baker EN, Lott JS, Parker EJ Biochemistry. 2015 Oct 6;54(39):6082-92. doi: 10.1021/acs.biochem.5b00612. PMID:26356348<ref>PMID:26356348</ref>

-	~~Authors: Cookson~~, ~~T.V.M., Parker, E.J., Lott, J~~.S.	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~Description~~: Anthranilate phosphoribosyltransferase ~~variant R193A from Mycobacterium tuberculosis with anthranilate bound~~	+	<div class="pdbe-citations 4x5d" style="background-color:#fffaf0;"></div>
-	[[Category: ~~Unreleased Structures~~]]	+	== References ==
-	[[Category: Lott, J.S]]	+	<references/>
-	[[Category: Parker, E.J]]	+	__TOC__
-	[[Category: ~~Cookson, T.V.M~~]]	+	</StructureSection>
		+	[[Category: Anthranilate phosphoribosyltransferase]]
		+	[[Category: Cookson, T V.M]]
		+	[[Category: Lott, J S]]
		+	[[Category: Parker, E J]]
		+	[[Category: Anthranilic acid]]
		+	[[Category: Magnesium]]
		+	[[Category: Magnesium binding]]
		+	[[Category: Mutation]]
		+	[[Category: Mycobacterium tuberculosis]]
		+	[[Category: Phosphoribosyl pyrophosphate]]
		+	[[Category: Transferase]]
		+	[[Category: Tryptophan]]

OCA at 11:04, 18 February 2015

2015-02-18T11:04:20Z

←Older revision		Revision as of 11:04, 18 February 2015
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 4x5d is ON HOLD	+	The entry 4x5d is ON HOLD until Paper Publication

	Authors: Cookson, T.V.M., Parker, E.J., Lott, J.S.		Authors: Cookson, T.V.M., Parker, E.J., Lott, J.S.

OCA at 20:30, 24 December 2014

2014-12-24T20:30:45Z

←Older revision		Revision as of 20:30, 24 December 2014
Line 6:		Line 6:

	Description: Anthranilate phosphoribosyltransferase variant R193A from Mycobacterium tuberculosis with anthranilate bound		Description: Anthranilate phosphoribosyltransferase variant R193A from Mycobacterium tuberculosis with anthranilate bound
		+	[[Category: Unreleased Structures]]
		+	[[Category: Lott, J.S]]
		+	[[Category: Parker, E.J]]
		+	[[Category: Cookson, T.V.M]]

OCA: Protected "4x5d" [edit=sysop:move=sysop]

2014-12-10T14:24:06Z

Protected "4x5d" [edit=sysop:move=sysop]

←Older revision

Revision as of 14:24, 10 December 2014

OCA: New page: '''Unreleased structure''' The entry 4x5d is ON HOLD Authors: Cookson, T.V.M., Parker, E.J., Lott, J.S. Description: Anthranilate phosphoribosyltransferase variant R193A from Mycobacte...

2014-12-10T14:24:05Z

New page: '''Unreleased structure''' The entry 4x5d is ON HOLD Authors: Cookson, T.V.M., Parker, E.J., Lott, J.S. Description: Anthranilate phosphoribosyltransferase variant R193A from Mycobacte...

New page

'''Unreleased structure'''

The entry 4x5d is ON HOLD

Authors: Cookson, T.V.M., Parker, E.J., Lott, J.S.

Description: Anthranilate phosphoribosyltransferase variant R193A from Mycobacterium tuberculosis with anthranilate bound