3jv8 - Revision history

OCA: Redirecting to 4v7g

2014-12-10T15:29:00Z

Redirecting to 4v7g

←Older revision		Revision as of 15:29, 10 December 2014
Line 1:		Line 1:
-	~~==Crystal Structure of Lumazine Synthase from Bacillus Anthracis==~~	+	#REDIRECT [[4v7g]] This PDB entry is obsolete and replaced by 4v7g
-	~~<StructureSection load='3jv8' size='340' side='right' caption='~~[[~~3jv8]], [[Resolution\|resolution]] 3.50Å' scene=''>~~	+
-	~~== Structural highlights ==~~	+
-	~~<table><tr><td colspan='2'>[[3jv8~~]] is a 30 chain structure with sequence from [http://en.wikipedia.org/wiki/Bacillus_anthracis Bacillus anthracis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3JV8 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3JV8 FirstGlance]. <br>	+
-	~~</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene></td></tr>~~	+
-	~~<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1vsw\|1vsw]], [[1vsx\|1vsx]]</td></tr>~~	+
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">ribH ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1392 Bacillus anthracis])</td></tr>	+
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/6,7-dimethyl-8-ribityllumazine_synthase 6,7-dimethyl-8-ribityllumazine synthase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.5.1.78 2.5.1.78] </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=3jv8 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3jv8 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3jv8 RCSB], [http://www.ebi.ac.uk/pdbsum/3jv8 PDBsum]</span></td></tr>	+
-	~~</table>~~	+
-	~~<div style="background-color:#fffaf0;">~~	+
-	~~== Publication Abstract from PubMed ==~~	+
-	~~The crystal structure of lumazine synthase from Bacillus anthracis was solved~~ by molecular replacement and refined to R(cryst) = 23.7% (R(free) = 28.4%) at a resolution of 3.5 A. The structure reveals the icosahedral symmetry of the enzyme and specific features of the active site that are unique in comparison with previously determined orthologues. The application of isothermal titration calorimetry in combination with enzyme kinetics showed that three designed pyrimidine derivatives bind to lumazine synthase with micromolar dissociation constants and competitively inhibit the catalytic reaction. Structure-based modelling suggested the binding modes of the inhibitors in the active site and allowed an estimation of the possible contacts formed upon binding. The results provide a structural framework for the design of antibiotics active against B. anthracis.	+
-		+
-	Structural study and thermodynamic characterization of inhibitor binding to lumazine synthase from Bacillus anthracis.,Morgunova E, Illarionov B, Saller S, Popov A, Sambaiah T, Bacher A, Cushman M, Fischer M, Ladenstein R Acta Crystallogr D Biol Crystallogr. 2010 Sep;66(Pt 9):1001-11. Epub 2010, Aug 13. PMID:20823551<ref>PMID:20823551</ref>	+
-		+
-	~~From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>~~	+
-	~~</div>~~	+
-	~~== References ==~~	+
-	~~<references/>~~	+
-	~~__TOC__~~	+
-	~~</StructureSection>~~	+
-	~~[[Category: 6,7-dimethyl-8-ribityllumazine synthase]]~~	+
-	~~[[Category: Bacillus anthracis]]~~	+
-	~~[[Category: Bacher, A]]~~	+
-	~~[[Category: Cushman, M]]~~	+
-	~~[[Category: Fischer, M]]~~	+
-	~~[[Category: Illarionov, B]]~~	+
-	~~[[Category: Ladenstein, R]]~~	+
-	~~[[Category: Morgunova, E]]~~	+
-	~~[[Category: Popov, A]]~~	+
-	~~[[Category: Saller, S]]~~	+
-	~~[[Category: Sambaiah, T]]~~	+
-	~~[[Category: Riboflavin biosynthesis]]~~	+
-	~~[[Category: Transferase]]~~	+

OCA at 09:16, 8 December 2014

2014-12-08T09:16:21Z

←Older revision		Revision as of 09:16, 8 December 2014
Line 1:		Line 1:
-	[[~~Image:~~3jv8.~~png~~\|~~left~~\|~~200px~~]]	+	==Crystal Structure of Lumazine Synthase from Bacillus Anthracis==
		+	<StructureSection load='3jv8' size='340' side='right' caption='[[3jv8]], [[Resolution\|resolution]] 3.50Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[3jv8]] is a 30 chain structure with sequence from [http://en.wikipedia.org/wiki/Bacillus_anthracis Bacillus anthracis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3JV8 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3JV8 FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene></td></tr>
		+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1vsw\|1vsw]], [[1vsx\|1vsx]]</td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">ribH ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1392 Bacillus anthracis])</td></tr>
		+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/6,7-dimethyl-8-ribityllumazine_synthase 6,7-dimethyl-8-ribityllumazine synthase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.5.1.78 2.5.1.78] </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=3jv8 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3jv8 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3jv8 RCSB], [http://www.ebi.ac.uk/pdbsum/3jv8 PDBsum]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	The crystal structure of lumazine synthase from Bacillus anthracis was solved by molecular replacement and refined to R(cryst) = 23.7% (R(free) = 28.4%) at a resolution of 3.5 A. The structure reveals the icosahedral symmetry of the enzyme and specific features of the active site that are unique in comparison with previously determined orthologues. The application of isothermal titration calorimetry in combination with enzyme kinetics showed that three designed pyrimidine derivatives bind to lumazine synthase with micromolar dissociation constants and competitively inhibit the catalytic reaction. Structure-based modelling suggested the binding modes of the inhibitors in the active site and allowed an estimation of the possible contacts formed upon binding. The results provide a structural framework for the design of antibiotics active against B. anthracis.

-	~~{{STRUCTURE_3jv8\| PDB=3jv8 \| SCENE= }}~~	+	Structural study and thermodynamic characterization of inhibitor binding to lumazine synthase from Bacillus anthracis.,Morgunova E, Illarionov B, Saller S, Popov A, Sambaiah T, Bacher A, Cushman M, Fischer M, Ladenstein R Acta Crystallogr D Biol Crystallogr. 2010 Sep;66(Pt 9):1001-11. Epub 2010, Aug 13. PMID:20823551<ref>PMID:20823551</ref>

-	~~===Crystal Structure~~ of ~~Lumazine Synthase from Bacillus Anthracis===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_20823551}}~~	+	== References ==
-		+	<references/>
-	~~==About this Structure==~~	+	__TOC__
-	~~[[3jv8]] is a 30 chain structure with sequence from [http://en~~.~~wikipedia~~.~~org/wiki/Bacillus_anthracis Bacillus anthracis]~~. ~~Full crystallographic information is available from [http:~~/~~/oca.weizmann.ac.il/oca-bin/ocashort?id=3JV8 OCA].~~	+	</StructureSection>
-		+
-	==~~Reference~~==	+
-	<~~ref group="xtra">PMID:020823551<~~/~~ref~~><~~references group="xtra"~~/>	+
	[[Category: 6,7-dimethyl-8-ribityllumazine synthase]]		[[Category: 6,7-dimethyl-8-ribityllumazine synthase]]
	[[Category: Bacillus anthracis]]		[[Category: Bacillus anthracis]]
-	[[Category: Bacher, A.]]	+	[[Category: Bacher, A]]
-	[[Category: Cushman, M.]]	+	[[Category: Cushman, M]]
-	[[Category: Fischer, M.]]	+	[[Category: Fischer, M]]
-	[[Category: Illarionov, B.]]	+	[[Category: Illarionov, B]]
-	[[Category: Ladenstein, R.]]	+	[[Category: Ladenstein, R]]
-	[[Category: Morgunova, E.]]	+	[[Category: Morgunova, E]]
-	[[Category: Popov, A.]]	+	[[Category: Popov, A]]
-	[[Category: Saller, S.]]	+	[[Category: Saller, S]]
-	[[Category: Sambaiah, T.]]	+	[[Category: Sambaiah, T]]
	[[Category: Riboflavin biosynthesis]]		[[Category: Riboflavin biosynthesis]]
	[[Category: Transferase]]		[[Category: Transferase]]

OCA: Protected "3jv8" [edit=sysop:move=sysop]

2013-01-16T09:18:09Z

Protected "3jv8" [edit=sysop:move=sysop]

←Older revision

Revision as of 09:18, 16 January 2013

OCA at 09:18, 16 January 2013

2013-01-16T09:18:05Z

←Older revision		Revision as of 09:18, 16 January 2013
Line 1:		Line 1:
-	~~{{Seed}}~~	+	[[Image:3jv8.png\|left\|200px]]
-	[[Image:3jv8.~~jpg~~\|left\|200px]]	+

-	<!--
-	The line below this paragraph, containing "STRUCTURE_3jv8", 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_3jv8\| PDB=3jv8 \| SCENE= }}		{{STRUCTURE_3jv8\| PDB=3jv8 \| SCENE= }}

	===Crystal Structure of Lumazine Synthase from Bacillus Anthracis===		===Crystal Structure of Lumazine Synthase from Bacillus Anthracis===

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_20823551}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 20823551 is the PubMed ID number.
-	-->
	{{ABSTRACT_PUBMED_20823551}}		{{ABSTRACT_PUBMED_20823551}}

	==About this Structure==		==About this Structure==
-	~~3JV8~~ is a 30 ~~chains~~ structure with ~~sequences~~ from [http://en.wikipedia.org/wiki/Bacillus_anthracis Bacillus anthracis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3JV8 OCA].	+	[[3jv8]] is a 30 chain structure with sequence from [http://en.wikipedia.org/wiki/Bacillus_anthracis Bacillus anthracis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3JV8 OCA].

	==Reference==		==Reference==
-	<ref group="xtra">PMID:~~20823551~~</ref><references group="xtra"/>	+	<ref group="xtra">PMID:020823551</ref><references group="xtra"/>
		+	[[Category: 6,7-dimethyl-8-ribityllumazine synthase]]
	[[Category: Bacillus anthracis]]		[[Category: Bacillus anthracis]]
-	[[Category: Riboflavin synthase]]
	[[Category: Bacher, A.]]		[[Category: Bacher, A.]]
	[[Category: Cushman, M.]]		[[Category: Cushman, M.]]
Line 37:		Line 25:
	[[Category: Riboflavin biosynthesis]]		[[Category: Riboflavin biosynthesis]]
	[[Category: Transferase]]		[[Category: Transferase]]
-
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Nov 10 06:47:00 2010''

OCA at 03:36, 10 November 2010

2010-11-10T03:36:06Z

←Older revision		Revision as of 03:36, 10 November 2010
Line 1:		Line 1:
-	~~'''Unreleased structure'''~~	+	{{Seed}}
		+	[[Image:3jv8.jpg\|left\|200px]]

-	The ~~entry 3jv8~~ is ~~ON HOLD~~ ~~until Paper Publication~~	+	<!--
		+	The line below this paragraph, containing "STRUCTURE_3jv8", 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_3jv8\| PDB=3jv8 \| SCENE= }}

-	~~Authors: Morgunova, E., Illarionov, B., Saller, S., Popov, A., Sambaiah, T., Bacher, A., Cushman, M., Fischer, M., Ladenstein, R.~~	+	===Crystal Structure of Lumazine Synthase from Bacillus Anthracis===

-	Description: Crystal Structure of Lumazine Synthase from Bacillus Anthracis

-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Nov ~~25 09~~:11:~~30 2009~~''	+	<!--
		+	The line below this paragraph, {{ABSTRACT_PUBMED_20823551}}, adds the Publication Abstract to the page
		+	(as it appears on PubMed at http://www.pubmed.gov), where 20823551 is the PubMed ID number.
		+	-->
		+	{{ABSTRACT_PUBMED_20823551}}
		+
		+	==About this Structure==
		+	3JV8 is a 30 chains structure with sequences from [http://en.wikipedia.org/wiki/Bacillus_anthracis Bacillus anthracis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3JV8 OCA].
		+
		+	==Reference==
		+	<ref group="xtra">PMID:20823551</ref><references group="xtra"/>
		+	[[Category: Bacillus anthracis]]
		+	[[Category: Riboflavin synthase]]
		+	[[Category: Bacher, A.]]
		+	[[Category: Cushman, M.]]
		+	[[Category: Fischer, M.]]
		+	[[Category: Illarionov, B.]]
		+	[[Category: Ladenstein, R.]]
		+	[[Category: Morgunova, E.]]
		+	[[Category: Popov, A.]]
		+	[[Category: Saller, S.]]
		+	[[Category: Sambaiah, T.]]
		+	[[Category: Riboflavin biosynthesis]]
		+	[[Category: Transferase]]
		+
		+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Nov 10 06:47:00 2010''

OCA at 07:11, 25 November 2009

2009-11-25T07:11:31Z

←Older revision		Revision as of 07:11, 25 November 2009
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 3jv8 is ON HOLD	+	The entry 3jv8 is ON HOLD until Paper Publication

	Authors: Morgunova, E., Illarionov, B., Saller, S., Popov, A., Sambaiah, T., Bacher, A., Cushman, M., Fischer, M., Ladenstein, R.		Authors: Morgunova, E., Illarionov, B., Saller, S., Popov, A., Sambaiah, T., Bacher, A., Cushman, M., Fischer, M., Ladenstein, R.
Line 7:		Line 7:
	Description: Crystal Structure of Lumazine Synthase from Bacillus Anthracis		Description: Crystal Structure of Lumazine Synthase from Bacillus Anthracis

-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed ~~Oct 14 10~~:06:18 2009''	+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Nov 25 09:11:30 2009''

OCA at 08:06, 14 October 2009

2009-10-14T08:06:19Z

←Older revision		Revision as of 08:06, 14 October 2009
Line 3:		Line 3:
	The entry 3jv8 is ON HOLD		The entry 3jv8 is ON HOLD

-	Authors: Morgunova, E., Illarionov, B., Saller, S., Popov, A., Sambaiah. T., Bacher, A., Cushman, M., Fischer, M., Ladenstein, R.	+	Authors: Morgunova, E., Illarionov, B., Saller, S., Popov, A., Sambaiah, T., Bacher, A., Cushman, M., Fischer, M., Ladenstein, R.

	Description: Crystal Structure of Lumazine Synthase from Bacillus Anthracis		Description: Crystal Structure of Lumazine Synthase from Bacillus Anthracis

-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed ~~Sep 23 08~~:31:17 2009''	+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Oct 14 10:06:18 2009''

OCA: New page: '''Unreleased structure''' The entry 3jv8 is ON HOLD Authors: Morgunova, E., Illarionov, B., Saller, S., Popov, A., Sambaiah. T., Bacher, A., Cushman, M., Fischer, M., Ladenstein, R. D...

2009-09-23T05:31:17Z

New page: '''Unreleased structure''' The entry 3jv8 is ON HOLD Authors: Morgunova, E., Illarionov, B., Saller, S., Popov, A., Sambaiah. T., Bacher, A., Cushman, M., Fischer, M., Ladenstein, R. D...

New page

'''Unreleased structure'''

The entry 3jv8 is ON HOLD

Authors: Morgunova, E., Illarionov, B., Saller, S., Popov, A., Sambaiah. T., Bacher, A., Cushman, M., Fischer, M., Ladenstein, R.

Description: Crystal Structure of Lumazine Synthase from Bacillus Anthracis

''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Sep 23 08:31:17 2009''