4fus - Revision history

OCA at 15:34, 14 March 2024

OCA — Thu, 14 Mar 2024 15:34:19 GMT

←Older revision		Revision as of 15:34, 14 March 2024
Line 10:		Line 10:
	== Function ==		== Function ==
	[https://www.uniprot.org/uniprot/Q2SJA2_HAHCH Q2SJA2_HAHCH]		[https://www.uniprot.org/uniprot/Q2SJA2_HAHCH Q2SJA2_HAHCH]
-	<div style="background-color:#fffaf0;">
-	== Publication Abstract from PubMed ==
-	Currently, the cost of cellulase enzymes remains a key economic impediment to commercialization of biofuels (1). Enzymes from glycoside hydrolase family 48 (GH48) are a critical component of numerous natural lignocellulose-degrading systems. Although computational mining of large genomic data sets is a promising new approach for identifying novel cellulolytic activities, current computational methods are unable to distinguish between cellulases and enzymes with different substrate specificities that belong to the same protein family. We show that by using a robust computational approach supported by experimental studies, cellulases and non-cellulases can be effectively identified within a given protein family. Phylogenetic analysis of GH48 showed non-monophyletic distribution, an indication of horizontal gene transfer. Enzymatic function of GH48 proteins coded by horizontally transferred genes was verified experimentally, which confirmed that these proteins are cellulases. Computational and structural studies of GH48 enzymes identified structural elements that define cellulases and can be used to computationally distinguish them from non-cellulases. We propose that the structural element that can be used for in silico discrimination between cellulases and non-cellulases belonging to GH48 is an omega-loop located on the surface of the molecule and characterized by highly conserved rare amino acids. These markers were used to screen metagenomics data for "true" cellulases.
-
-	Sequence, structure, and evolution of cellulases in glycoside hydrolase family 48.,Sukharnikov LO, Alahuhta M, Brunecky R, Upadhyay A, Himmel ME, Lunin VV, Zhulin IB J Biol Chem. 2012 Nov 30;287(49):41068-77. doi: 10.1074/jbc.M112.405720. Epub, 2012 Oct 10. PMID:23055526<ref>PMID:23055526</ref>
-
-	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	</div>
-	<div class="pdbe-citations 4fus" style="background-color:#fffaf0;"></div>
-	== References ==
-	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>

OCA at 08:22, 6 December 2023

OCA — Wed, 06 Dec 2023 08:22:33 GMT

←Older revision		Revision as of 08:22, 6 December 2023
Line 4:		Line 4:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[4fus]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Hahella_chejuensis_KCTC_2396 Hahella chejuensis KCTC 2396]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4FUS OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4FUS FirstGlance]. <br>		<table><tr><td colspan='2'>[[4fus]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Hahella_chejuensis_KCTC_2396 Hahella chejuensis KCTC 2396]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4FUS OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4FUS FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>, <scene name='pdbligand=BGC:BETA-D-GLUCOSE'>BGC</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=OHI:3-(2-OXO-2H-IMIDAZOL-4-YL)-L-ALANINE'>OHI</scene>, <scene name='pdbligand=PEG:DI(HYDROXYETHYL)ETHER'>PEG</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene>, <scene name='pdbligand=PRD_900005:beta-cellobiose'>PRD_900005</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]] 1.75Å</td></tr>
		+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>, <scene name='pdbligand=BGC:BETA-D-GLUCOSE'>BGC</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=OHI:3-(2-OXO-2H-IMIDAZOL-4-YL)-L-ALANINE'>OHI</scene>, <scene name='pdbligand=PEG:DI(HYDROXYETHYL)ETHER'>PEG</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene>, <scene name='pdbligand=PRD_900005:beta-cellobiose'>PRD_900005</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=4fus FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4fus OCA], [https://pdbe.org/4fus PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4fus RCSB], [https://www.ebi.ac.uk/pdbsum/4fus PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4fus 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=4fus FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4fus OCA], [https://pdbe.org/4fus PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4fus RCSB], [https://www.ebi.ac.uk/pdbsum/4fus PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4fus ProSAT]</span></td></tr>
	</table>		</table>

OCA at 20:11, 19 October 2022

OCA — Wed, 19 Oct 2022 20:11:14 GMT

←Older revision		Revision as of 20:11, 19 October 2022
Line 1:		Line 1:

	==The X-ray structure of Hahella chejuensis family 48 glycosyl hydrolase==		==The X-ray structure of Hahella chejuensis family 48 glycosyl hydrolase==
-	<StructureSection load='4fus' size='340' side='right' caption='[[4fus]], [[Resolution\|resolution]] 1.75Å' scene=''>	+	<StructureSection load='4fus' size='340' side='right'caption='[[4fus]], [[Resolution\|resolution]] 1.75Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4fus]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Hahch Hahch~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4FUS OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=4FUS FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4fus]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Hahella_chejuensis_KCTC_2396 Hahella chejuensis KCTC 2396]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4FUS OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4FUS FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>, <scene name='pdbligand=CA:~~CALCIUM+ION~~'>CA</scene>, <scene name='pdbligand=~~CBI~~:~~CELLOBIOSE~~'>~~CBI~~</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, ~~<scene name='pdbligand=PEG:DI(HYDROXYETHYL)ETHER'>PEG</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene></td></tr>~~	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>, <scene name='pdbligand=BGC:BETA-D-GLUCOSE'>BGC</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=OHI:3-(2-OXO-2H-IMIDAZOL-4-YL)-L-ALANINE'>OHI</scene>, <scene name='pdbligand=PEG:DI(HYDROXYETHYL)ETHER'>PEG</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene>, <scene name='pdbligand=PRD_900005:beta-cellobiose'>PRD_900005</scene></td></tr>
-	~~<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat">~~<scene name='pdbligand=OHI:3-(2-OXO-2H-IMIDAZOL-4-YL)-L-ALANINE'>OHI</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=4fus FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4fus OCA], [https://pdbe.org/4fus PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4fus RCSB], [https://www.ebi.ac.uk/pdbsum/4fus PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4fus ProSAT]</span></td></tr>
-	~~<tr id~~='~~gene'><td class~~=~~"sblockLbl"><b>[[Gene\|Gene~~:~~]]</b></td><td class="sblockDat">HCH_02465~~ (~~[http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=349521 HAHCH]~~)~~</td~~></tr>	+
-	<~~tr id~~='~~activity'><td class~~=~~"sblockLbl"><b>Activity~~:~~</b~~></td><~~td class~~=~~"sblockDat"><span class~~=~~'plainlinks~~'>~~[http://en.wikipedia.org/wiki/Cellulase Cellulase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.1.4 3.2.1.4]~~ </~~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=4fus FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4fus OCA], [~~http~~://pdbe.org/4fus PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=4fus RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/4fus PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=4fus ProSAT]</span></td></tr>	+
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/Q2SJA2_HAHCH Q2SJA2_HAHCH]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 23:		Line 22:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Cellulase~~]]	+	[[Category: Hahella chejuensis KCTC 2396]]
-	[[Category: ~~Hahch~~]]	+	[[Category: Large Structures]]
-	[[Category: Alahuhta~~, P M~~]]	+	[[Category: Alahuhta PM]]
-	[[Category: Lunin~~, V V]]~~	+	[[Category: Lunin VV]]
-	~~[[Category: Gh48]]~~	+
-	~~[[Category: Glycosyl hydrolase]]~~	+
-	~~[[Category: Hydrolase~~]]	+

OCA at 11:57, 11 August 2016

OCA — Thu, 11 Aug 2016 11:57:15 GMT

←Older revision		Revision as of 11:57, 11 August 2016
Line 1:		Line 1:
		+
	==The X-ray structure of Hahella chejuensis family 48 glycosyl hydrolase==		==The X-ray structure of Hahella chejuensis family 48 glycosyl hydrolase==
	<StructureSection load='4fus' size='340' side='right' caption='[[4fus]], [[Resolution\|resolution]] 1.75Å' scene=''>		<StructureSection load='4fus' size='340' side='right' caption='[[4fus]], [[Resolution\|resolution]] 1.75Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4fus]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Hahella_chejuensis_kctc_2396 Hahella chejuensis kctc 2396~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4FUS OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4FUS FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4fus]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Hahch Hahch]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4FUS OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4FUS FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=CBI:CELLOBIOSE'>CBI</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=PEG:DI(HYDROXYETHYL)ETHER'>PEG</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=CBI:CELLOBIOSE'>CBI</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=PEG:DI(HYDROXYETHYL)ETHER'>PEG</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene></td></tr>
	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=OHI:3-(2-OXO-2H-IMIDAZOL-4-YL)-L-ALANINE'>OHI</scene></td></tr>		<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=OHI:3-(2-OXO-2H-IMIDAZOL-4-YL)-L-ALANINE'>OHI</scene></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">HCH_02465 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=349521 ~~Hahella chejuensis KCTC 2396~~])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">HCH_02465 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=349521 HAHCH])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Cellulase Cellulase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.1.4 3.2.1.4] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Cellulase Cellulase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.1.4 3.2.1.4] </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=4fus FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4fus OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4fus RCSB], [http://www.ebi.ac.uk/pdbsum/4fus 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=4fus FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4fus OCA], [http://pdbe.org/4fus PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4fus RCSB], [http://www.ebi.ac.uk/pdbsum/4fus PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4fus ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
Line 17:		Line 18:
	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 4fus" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>
Line 22:		Line 24:
	</StructureSection>		</StructureSection>
	[[Category: Cellulase]]		[[Category: Cellulase]]
-	[[Category: ~~Hahella chejuensis kctc 2396~~]]	+	[[Category: Hahch]]
	[[Category: Alahuhta, P M]]		[[Category: Alahuhta, P M]]
	[[Category: Lunin, V V]]		[[Category: Lunin, V V]]

OCA at 14:07, 4 January 2015

OCA — Sun, 04 Jan 2015 14:07:10 GMT

←Older revision		Revision as of 14:07, 4 January 2015
Line 1:		Line 1:
-	[[~~Image:~~4fus.~~png~~\|~~left~~\|~~200px~~]]	+	==The X-ray structure of Hahella chejuensis family 48 glycosyl hydrolase==
		+	<StructureSection load='4fus' size='340' side='right' caption='[[4fus]], [[Resolution\|resolution]] 1.75Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[4fus]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Hahella_chejuensis_kctc_2396 Hahella chejuensis kctc 2396]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4FUS OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4FUS FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=CBI:CELLOBIOSE'>CBI</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=PEG:DI(HYDROXYETHYL)ETHER'>PEG</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene></td></tr>
		+	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=OHI:3-(2-OXO-2H-IMIDAZOL-4-YL)-L-ALANINE'>OHI</scene></td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">HCH_02465 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=349521 Hahella chejuensis KCTC 2396])</td></tr>
		+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Cellulase Cellulase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.1.4 3.2.1.4] </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=4fus FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4fus OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4fus RCSB], [http://www.ebi.ac.uk/pdbsum/4fus PDBsum]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Currently, the cost of cellulase enzymes remains a key economic impediment to commercialization of biofuels (1). Enzymes from glycoside hydrolase family 48 (GH48) are a critical component of numerous natural lignocellulose-degrading systems. Although computational mining of large genomic data sets is a promising new approach for identifying novel cellulolytic activities, current computational methods are unable to distinguish between cellulases and enzymes with different substrate specificities that belong to the same protein family. We show that by using a robust computational approach supported by experimental studies, cellulases and non-cellulases can be effectively identified within a given protein family. Phylogenetic analysis of GH48 showed non-monophyletic distribution, an indication of horizontal gene transfer. Enzymatic function of GH48 proteins coded by horizontally transferred genes was verified experimentally, which confirmed that these proteins are cellulases. Computational and structural studies of GH48 enzymes identified structural elements that define cellulases and can be used to computationally distinguish them from non-cellulases. We propose that the structural element that can be used for in silico discrimination between cellulases and non-cellulases belonging to GH48 is an omega-loop located on the surface of the molecule and characterized by highly conserved rare amino acids. These markers were used to screen metagenomics data for "true" cellulases.

-	~~{{STRUCTURE_4fus\| PDB=4fus \| SCENE= }}~~	+	Sequence, structure, and evolution of cellulases in glycoside hydrolase family 48.,Sukharnikov LO, Alahuhta M, Brunecky R, Upadhyay A, Himmel ME, Lunin VV, Zhulin IB J Biol Chem. 2012 Nov 30;287(49):41068-77. doi: 10.1074/jbc.M112.405720. Epub, 2012 Oct 10. PMID:23055526<ref>PMID:23055526</ref>

-	~~===The X-ray structure~~ of ~~Hahella chejuensis family 48 glycosyl hydrolase===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_23055526}}~~	+	== References ==
-		+	<references/>
-	==~~About this Structure~~==	+	__TOC__
-	~~[[4fus]] is a 1 chain structure with sequence from [http:~~//~~en.wikipedia.org/wiki/Hahella_chejuensis_kctc_2396 Hahella chejuensis kctc 2396]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4FUS OCA].~~	+	</StructureSection>
	[[Category: Cellulase]]		[[Category: Cellulase]]
	[[Category: Hahella chejuensis kctc 2396]]		[[Category: Hahella chejuensis kctc 2396]]
-	[[Category: Alahuhta, P M.]]	+	[[Category: Alahuhta, P M]]
-	[[Category: Lunin, V V.]]	+	[[Category: Lunin, V V]]
	[[Category: Gh48]]		[[Category: Gh48]]
	[[Category: Glycosyl hydrolase]]		[[Category: Glycosyl hydrolase]]
	[[Category: Hydrolase]]		[[Category: Hydrolase]]

OCA at 10:29, 19 December 2012

OCA — Wed, 19 Dec 2012 10:29:57 GMT

←Older revision		Revision as of 10:29, 19 December 2012
Line 1:		Line 1:
-	[[Image:4fus.~~jpg~~\|left\|200px]]	+	[[Image:4fus.png\|left\|200px]]

	{{STRUCTURE_4fus\| PDB=4fus \| SCENE= }}		{{STRUCTURE_4fus\| PDB=4fus \| SCENE= }}
Line 5:		Line 5:
	===The X-ray structure of Hahella chejuensis family 48 glycosyl hydrolase===		===The X-ray structure of Hahella chejuensis family 48 glycosyl hydrolase===

		+	{{ABSTRACT_PUBMED_23055526}}

	==About this Structure==		==About this Structure==

OCA at 07:13, 17 October 2012

OCA — Wed, 17 Oct 2012 07:13:16 GMT

←Older revision		Revision as of 07:13, 17 October 2012
Line 1:		Line 1:
-	~~'''Unreleased structure'''~~	+	[[Image:4fus.jpg\|left\|200px]]

-	~~The entry~~ 4fus ~~is ON HOLD~~	+	{{STRUCTURE_4fus\| PDB=4fus \| SCENE= }}

-	~~Authors: Alahuhta, P.M., Lunin, V.V.~~	+	===The X-ray structure of Hahella chejuensis family 48 glycosyl hydrolase===

-	~~Description~~: ~~The X~~-~~ray structure of~~ Hahella chejuensis ~~family 48 glycosyl~~ hydrolase	+
		+	==About this Structure==
		+	[[4fus]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Hahella_chejuensis_kctc_2396 Hahella chejuensis kctc 2396]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4FUS OCA].
		+	[[Category: Cellulase]]
		+	[[Category: Hahella chejuensis kctc 2396]]
		+	[[Category: Alahuhta, P M.]]
		+	[[Category: Lunin, V V.]]
		+	[[Category: Gh48]]
		+	[[Category: Glycosyl hydrolase]]
		+	[[Category: Hydrolase]]

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

OCA — Wed, 04 Jul 2012 07:23:51 GMT

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

←Older revision

Revision as of 07:23, 4 July 2012

OCA: New page: '''Unreleased structure''' The entry 4fus is ON HOLD Authors: Alahuhta, P.M., Lunin, V.V. Description: The X-ray structure of Hahella chejuensis family 48 glycosyl hydrolase

OCA — Wed, 04 Jul 2012 07:23:50 GMT

New page: '''Unreleased structure''' The entry 4fus is ON HOLD Authors: Alahuhta, P.M., Lunin, V.V. Description: The X-ray structure of Hahella chejuensis family 48 glycosyl hydrolase

New page

'''Unreleased structure'''

The entry 4fus is ON HOLD

Authors: Alahuhta, P.M., Lunin, V.V.

Description: The X-ray structure of Hahella chejuensis family 48 glycosyl hydrolase