4fk9 - Revision history

OCA at 11:17, 1 March 2024

2024-03-01T11:17:27Z

←Older revision		Revision as of 11:17, 1 March 2024
Line 4:		Line 4:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[4fk9]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Streptomyces_sp._SirexAA-E Streptomyces sp. SirexAA-E]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4FK9 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4FK9 FirstGlance]. <br>		<table><tr><td colspan='2'>[[4fk9]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Streptomyces_sp._SirexAA-E Streptomyces sp. SirexAA-E]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4FK9 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4FK9 FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</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]] 1.06Å</td></tr>
		+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</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=4fk9 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4fk9 OCA], [https://pdbe.org/4fk9 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4fk9 RCSB], [https://www.ebi.ac.uk/pdbsum/4fk9 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4fk9 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=4fk9 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4fk9 OCA], [https://pdbe.org/4fk9 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4fk9 RCSB], [https://www.ebi.ac.uk/pdbsum/4fk9 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4fk9 ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
	[https://www.uniprot.org/uniprot/G2NHM6_STREK G2NHM6_STREK]		[https://www.uniprot.org/uniprot/G2NHM6_STREK G2NHM6_STREK]
-	<div style="background-color:#fffaf0;">
-	== Publication Abstract from PubMed ==
-	beta-Mannanase SACTE_2347 from cellulolytic Streptomyces sp. SirexAA-E is abundantly secreted into the culture medium during growth on cellulosic materials. The enzyme is composed of domains from the glycoside hydrolase family 5 (GH5), fibronectin type-III (Fn3), and carbohydrate binding module family 2 (CBM2). After secretion, the enzyme is proteolyzed into three different, catalytically active variants with masses of 53, 42 and 34 kDa corresponding to the intact protein, loss of the CBM2 domain, or loss of both the Fn3 and CBM2 domains. The three variants had identical N-termini starting with Ala51, and the positions of specific proteolytic reactions in the linker sequences separating the three domains were identified. To conduct biochemical and structural characterizations, the natural proteolytic variants were reproduced by cloning and heterologously expressed in Escherichia coli. Each SACTE_2347 variant hydrolyzed only beta-1,4 mannosidic linkages, and also reacted with pure mannans containing partial galactosyl- and/or glucosyl substitutions. Examination of the X-ray crystal structure of the GH5 domain of SACTE_2347 suggests that two loops adjacent to the active site channel, which have differences in position and length relative to other closely related mannanases, play a role in producing the observed substrate selectivity.
-
-	Biochemical properties and atomic resolution structure of a proteolytically processed beta-mannanase from cellulolytic Streptomyces sp. SirexAA-E.,Takasuka TE, Acheson JF, Bianchetti CM, Prom BM, Bergeman LF, Book AJ, Currie CR, Fox BG PLoS One. 2014 Apr 7;9(4):e94166. doi: 10.1371/journal.pone.0094166. eCollection , 2014. PMID:24710170<ref>PMID:24710170</ref>
-
-	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	</div>
-	<div class="pdbe-citations 4fk9" style="background-color:#fffaf0;"></div>
-	== References ==
-	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>

OCA at 19:54, 19 October 2022

2022-10-19T19:54:30Z

←Older revision		Revision as of 19:54, 19 October 2022
Line 1:		Line 1:

	==High Resolution Structure of the Catalytic Domain of Mannanase SActE_2347 from Streptomyces sp. SirexAA-E==		==High Resolution Structure of the Catalytic Domain of Mannanase SActE_2347 from Streptomyces sp. SirexAA-E==
-	<StructureSection load='4fk9' size='340' side='right' caption='[[4fk9]], [[Resolution\|resolution]] 1.06Å' scene=''>	+	<StructureSection load='4fk9' size='340' side='right'caption='[[4fk9]], [[Resolution\|resolution]] 1.06Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4fk9]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Strek Strek~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4FK9 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=4FK9 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4fk9]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Streptomyces_sp._SirexAA-E Streptomyces sp. SirexAA-E]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4FK9 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4FK9 FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>~~</td></tr>~~	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></td></tr>
-	~~<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">2347, SACTE_2347 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=862751 STREK])~~</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=4fk9 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4fk9 OCA], [https://pdbe.org/4fk9 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4fk9 RCSB], [https://www.ebi.ac.uk/pdbsum/4fk9 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4fk9 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=4fk9 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4fk9 OCA], [~~http~~://pdbe.org/4fk9 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=4fk9 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/4fk9 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=4fk9 ProSAT]</span></td></tr>	+
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/G2NHM6_STREK G2NHM6_STREK]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 21:		Line 22:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Strek~~]]	+	[[Category: Large Structures]]
-	[[Category: ~~Acheson, J F]]~~	+	[[Category: Streptomyces sp. SirexAA-E]]
-	~~[[Category: Fox, B G]]~~	+	[[Category: Acheson JF]]
-	~~[[Category: Takasuka, T~~ E]]	+	[[Category: Fox BG]]
-	[[Category: ~~Beta-mannanase~~]]	+	[[Category: Takasuka TE]]
-	[[Category: ~~Gh5 tim barrel~~]]	+
-	[[Category: ~~Glycoside hydrolase]]~~	+
-	~~[[Category: Hydrolase~~]]	+

OCA at 08:17, 15 November 2017

2017-11-15T08:17:43Z

←Older revision		Revision as of 08:17, 15 November 2017
Line 1:		Line 1:
		+
	==High Resolution Structure of the Catalytic Domain of Mannanase SActE_2347 from Streptomyces sp. SirexAA-E==		==High Resolution Structure of the Catalytic Domain of Mannanase SActE_2347 from Streptomyces sp. SirexAA-E==
	<StructureSection load='4fk9' size='340' side='right' caption='[[4fk9]], [[Resolution\|resolution]] 1.06Å' scene=''>		<StructureSection load='4fk9' size='340' side='right' caption='[[4fk9]], [[Resolution\|resolution]] 1.06Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4fk9]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Streptomyces_sp._acte Streptomyces sp. acte~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4FK9 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4FK9 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4fk9]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Strek Strek]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4FK9 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4FK9 FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">2347, SACTE_2347 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=862751 ~~Streptomyces sp. ACTE~~])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">2347, SACTE_2347 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=862751 STREK])</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=4fk9 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4fk9 OCA], [http://pdbe.org/4fk9 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4fk9 RCSB], [http://www.ebi.ac.uk/pdbsum/4fk9 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=4fk9 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4fk9 OCA], [http://pdbe.org/4fk9 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4fk9 RCSB], [http://www.ebi.ac.uk/pdbsum/4fk9 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4fk9 ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
Line 20:		Line 21:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Streptomyces sp. acte~~]]	+	[[Category: Strek]]
	[[Category: Acheson, J F]]		[[Category: Acheson, J F]]
	[[Category: Fox, B G]]		[[Category: Fox, B G]]

OCA at 07:30, 30 September 2015

2015-09-30T07:30:23Z

←Older revision		Revision as of 07:30, 30 September 2015
Line 1:		Line 1:
-	~~{{STRUCTURE_4fk9\| PDB=4fk9 \| SCENE= }}~~	+	==High Resolution Structure of the Catalytic Domain of Mannanase SActE_2347 from Streptomyces sp. SirexAA-E==
-	===High Resolution Structure of the Catalytic Domain of Mannanase SActE_2347 from Streptomyces sp. SirexAA-E===	+	<StructureSection load='4fk9' size='340' side='right' caption='[[4fk9]], [[Resolution\|resolution]] 1.06Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[4fk9]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Streptomyces_sp._acte Streptomyces sp. acte]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4FK9 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4FK9 FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">2347, SACTE_2347 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=862751 Streptomyces sp. ACTE])</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=4fk9 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4fk9 OCA], [http://pdbe.org/4fk9 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4fk9 RCSB], [http://www.ebi.ac.uk/pdbsum/4fk9 PDBsum]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	beta-Mannanase SACTE_2347 from cellulolytic Streptomyces sp. SirexAA-E is abundantly secreted into the culture medium during growth on cellulosic materials. The enzyme is composed of domains from the glycoside hydrolase family 5 (GH5), fibronectin type-III (Fn3), and carbohydrate binding module family 2 (CBM2). After secretion, the enzyme is proteolyzed into three different, catalytically active variants with masses of 53, 42 and 34 kDa corresponding to the intact protein, loss of the CBM2 domain, or loss of both the Fn3 and CBM2 domains. The three variants had identical N-termini starting with Ala51, and the positions of specific proteolytic reactions in the linker sequences separating the three domains were identified. To conduct biochemical and structural characterizations, the natural proteolytic variants were reproduced by cloning and heterologously expressed in Escherichia coli. Each SACTE_2347 variant hydrolyzed only beta-1,4 mannosidic linkages, and also reacted with pure mannans containing partial galactosyl- and/or glucosyl substitutions. Examination of the X-ray crystal structure of the GH5 domain of SACTE_2347 suggests that two loops adjacent to the active site channel, which have differences in position and length relative to other closely related mannanases, play a role in producing the observed substrate selectivity.

-	~~==About this Structure==~~	+	Biochemical properties and atomic resolution structure of a proteolytically processed beta-mannanase from cellulolytic Streptomyces sp. SirexAA-E.,Takasuka TE, Acheson JF, Bianchetti CM, Prom BM, Bergeman LF, Book AJ, Currie CR, Fox BG PLoS One. 2014 Apr 7;9(4):e94166. doi: 10.1371/journal.pone.0094166. eCollection , 2014. PMID:24710170<ref>PMID:24710170</ref>
-	~~[[4fk9]] is a 1 chain~~ structure ~~with sequence~~ from ~~[http~~:~~//en~~.~~wikipedia~~.~~org/wiki~~/~~Streptomyces_sp~~.~~_sirexaa-e Streptomyces sp~~. ~~sirexaa-e]~~. ~~Full crystallographic information is available from [http~~://~~oca~~.~~weizmann~~.ac.il/~~oca~~-~~bin~~/~~ocashort?id~~=~~4FK9 OCA].~~	+
-	[[Category: Streptomyces sp. ~~sirexaa-e~~]]	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	[[Category: Acheson, J F.]]	+	</div>
-	[[Category: Fox, B G.]]	+	<div class="pdbe-citations 4fk9" style="background-color:#fffaf0;"></div>
-	[[Category: Takasuka, T E.]]	+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Streptomyces sp. acte]]
		+	[[Category: Acheson, J F]]
		+	[[Category: Fox, B G]]
		+	[[Category: Takasuka, T E]]
	[[Category: Beta-mannanase]]		[[Category: Beta-mannanase]]
	[[Category: Gh5 tim barrel]]		[[Category: Gh5 tim barrel]]
	[[Category: Glycoside hydrolase]]		[[Category: Glycoside hydrolase]]
	[[Category: Hydrolase]]		[[Category: Hydrolase]]

OCA at 10:23, 30 June 2013

2013-06-30T10:23:57Z

←Older revision		Revision as of 10:23, 30 June 2013
Line 1:		Line 1:
-	~~'''Unreleased structure'''~~	+	{{STRUCTURE_4fk9\| PDB=4fk9 \| SCENE= }}
		+	===High Resolution Structure of the Catalytic Domain of Mannanase SActE_2347 from Streptomyces sp. SirexAA-E===

-	~~The entry~~ 4fk9 is ~~ON HOLD until Paper Publication~~	+	==About this Structure==
-		+	[[4fk9]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Streptomyces_sp._sirexaa-e Streptomyces sp. sirexaa-e]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4FK9 OCA].
-	~~Authors~~: Acheson, J.F.~~, Takasuka, T.E.,~~ Fox, B.G.	+	[[Category: Streptomyces sp. sirexaa-e]]
-		+	[[Category: Acheson, J F.]]
-	~~Description~~: ~~High Resolution Structure of the Catalytic Domain of Mannanase SActE_2347 from Streptomyces sp~~. ~~SirexAA~~-E	+	[[Category: Fox, B G.]]
		+	[[Category: Takasuka, T E.]]
		+	[[Category: Beta-mannanase]]
		+	[[Category: Gh5 tim barrel]]
		+	[[Category: Glycoside hydrolase]]
		+	[[Category: Hydrolase]]

OCA at 07:16, 4 July 2012

2012-07-04T07:16:53Z

←Older revision		Revision as of 07:16, 4 July 2012
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 4fk9 is ON HOLD	+	The entry 4fk9 is ON HOLD until Paper Publication

	Authors: Acheson, J.F., Takasuka, T.E., Fox, B.G.		Authors: Acheson, J.F., Takasuka, T.E., Fox, B.G.

	Description: High Resolution Structure of the Catalytic Domain of Mannanase SActE_2347 from Streptomyces sp. SirexAA-E		Description: High Resolution Structure of the Catalytic Domain of Mannanase SActE_2347 from Streptomyces sp. SirexAA-E

OCA: Protected "4fk9" [edit=sysop:move=sysop]

2012-06-20T07:28:08Z

Protected "4fk9" [edit=sysop:move=sysop]

←Older revision

Revision as of 07:28, 20 June 2012

OCA: New page: '''Unreleased structure''' The entry 4fk9 is ON HOLD Authors: Acheson, J.F., Takasuka, T.E., Fox, B.G. Description: High Resolution Structure of the Catalytic Domain of Mannanase SActE...

2012-06-20T07:28:07Z

New page: '''Unreleased structure''' The entry 4fk9 is ON HOLD Authors: Acheson, J.F., Takasuka, T.E., Fox, B.G. Description: High Resolution Structure of the Catalytic Domain of Mannanase SActE...

New page

'''Unreleased structure'''

The entry 4fk9 is ON HOLD

Authors: Acheson, J.F., Takasuka, T.E., Fox, B.G.

Description: High Resolution Structure of the Catalytic Domain of Mannanase SActE_2347 from Streptomyces sp. SirexAA-E