6t6c - Revision history

OCA at 12:55, 24 January 2024

OCA — Wed, 24 Jan 2024 12:55:39 GMT

←Older revision		Revision as of 12:55, 24 January 2024
Line 3:		Line 3:
	<StructureSection load='6t6c' size='340' side='right'caption='[[6t6c]], [[Resolution\|resolution]] 1.25Å' scene=''>		<StructureSection load='6t6c' size='340' side='right'caption='[[6t6c]], [[Resolution\|resolution]] 1.25Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6t6c]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Hoatzin Hoatzin~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6T6C OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=6T6C FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6t6c]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Opisthocomus_hoazin Opisthocomus hoazin]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6T6C OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6T6C 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=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</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]] 1.25Å</td></tr>
-	<tr id='~~gene~~'><td class="sblockLbl"><b>[[~~Gene~~\|~~Gene~~:]]</b></td><td class="sblockDat"~~>LYZ ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&~~id=~~30419 Hoatzin])</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=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene></td></tr>
-	~~<tr id~~='~~activity'><td class~~=~~"sblockLbl"><b>Activity~~:~~</b~~></td><~~td class~~=~~"sblockDat"><span class~~=~~'plainlinks~~'>~~[http://en.wikipedia.org/wiki/Lysozyme Lysozyme], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.1.17 3.2.1.17]~~ </~~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=6t6c FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6t6c OCA], [https://pdbe.org/6t6c PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6t6c RCSB], [https://www.ebi.ac.uk/pdbsum/6t6c PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6t6c ProSAT]</span></td></tr>
-	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://proteopedia.org/fgij/fg.htm?mol=6t6c FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6t6c OCA], [~~http~~://pdbe.org/6t6c PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=6t6c RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/6t6c PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=6t6c ProSAT]</span></td></tr>	+
	</table>		</table>
	== Function ==		== Function ==
-	[~~[http~~://www.uniprot.org/uniprot/LYSC_OPIHO LYSC_OPIHO]] Lysozymes have primarily a bacteriolytic function; those in tissues and body fluids are associated with the monocyte-macrophage system and enhance the activity of immunoagents.	+	[https://www.uniprot.org/uniprot/LYSC_OPIHO LYSC_OPIHO] Lysozymes have primarily a bacteriolytic function; those in tissues and body fluids are associated with the monocyte-macrophage system and enhance the activity of immunoagents.
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 24:		Line 23:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Hoatzin]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Lysozyme~~]]	+	[[Category: Opisthocomus hoazin]]
-	[[Category: Davies~~, G J~~]]	+	[[Category: Davies GJ]]
-	[[Category: ~~Gippert, G P~~]]	+	[[Category: De Maria L]]
-	[[Category: ~~Klausen, M~~]]	+	[[Category: Gippert GP]]
-	[[Category: ~~Maria, L De~~]]	+	[[Category: Klausen M]]
-	[[Category: Skjot, M]]	+	[[Category: Skjot M]]
-	[[Category: Skov~~, L K~~]]	+	[[Category: Skov LK]]
-	[[Category: Taylor~~, E J~~]]	+	[[Category: Taylor EJ]]
-	[[Category: Turkenburg~~, J P~~]]	+	[[Category: Turkenburg JP]]
-	[[Category: Wilson~~, K S]]~~	+	[[Category: Wilson KS]]
-	~~[[Category: C-type lysoyme]]~~	+
-	~~[[Category: Glycoside hydrolase]]~~	+
-	~~[[Category: Hydrolase~~]]	+

OCA at 07:36, 30 September 2020

OCA — Wed, 30 Sep 2020 07:36:36 GMT

←Older revision		Revision as of 07:36, 30 September 2020
Line 3:		Line 3:
	<StructureSection load='6t6c' size='340' side='right'caption='[[6t6c]], [[Resolution\|resolution]] 1.25Å' scene=''>		<StructureSection load='6t6c' size='340' side='right'caption='[[6t6c]], [[Resolution\|resolution]] 1.25Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6t6c]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Hoatzin Hoatzin]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6T6C OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=6T6C FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6t6c]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Hoatzin Hoatzin]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6T6C OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=6T6C 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=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</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=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene></td></tr>
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">LYZ ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=30419 Hoatzin])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">LYZ ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=30419 Hoatzin])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Lysozyme Lysozyme], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.1.17 3.2.1.17] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Lysozyme Lysozyme], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.1.17 3.2.1.17] </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=6t6c FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6t6c OCA], [http://pdbe.org/6t6c PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6t6c RCSB], [http://www.ebi.ac.uk/pdbsum/6t6c PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6t6c ProSAT]</span></td></tr>	+	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://proteopedia.org/fgij/fg.htm?mol=6t6c FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6t6c OCA], [http://pdbe.org/6t6c PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6t6c RCSB], [http://www.ebi.ac.uk/pdbsum/6t6c PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6t6c ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==

OCA at 09:27, 27 November 2019

OCA — Wed, 27 Nov 2019 09:27:54 GMT

←Older revision		Revision as of 09:27, 27 November 2019
Line 3:		Line 3:
	<StructureSection load='6t6c' size='340' side='right'caption='[[6t6c]], [[Resolution\|resolution]] 1.25Å' scene=''>		<StructureSection load='6t6c' size='340' side='right'caption='[[6t6c]], [[Resolution\|resolution]] 1.25Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6t6c]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6T6C OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6T6C FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6t6c]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Hoatzin Hoatzin]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6T6C OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6T6C 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=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene>, <~~scene name~~='~~pdbligand~~=~~YYR~~:~~2-(acetylamino)-1,5-anhydro-2-deoxy-D-mannitol'~~>~~YYR~~</~~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=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene></td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">LYZ ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=30419 Hoatzin])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Lysozyme Lysozyme], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.1.17 3.2.1.17] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Lysozyme Lysozyme], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.1.17 3.2.1.17] </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=6t6c FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6t6c OCA], [http://pdbe.org/6t6c PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6t6c RCSB], [http://www.ebi.ac.uk/pdbsum/6t6c PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6t6c 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=6t6c FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6t6c OCA], [http://pdbe.org/6t6c PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6t6c RCSB], [http://www.ebi.ac.uk/pdbsum/6t6c PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6t6c ProSAT]</span></td></tr>
Line 23:		Line 24:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Hoatzin]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
	[[Category: Lysozyme]]		[[Category: Lysozyme]]

OCA at 15:37, 20 November 2019

OCA — Wed, 20 Nov 2019 15:37:45 GMT

←Older revision		Revision as of 15:37, 20 November 2019
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 6t6c is ~~ON HOLD~~	+	==Complex with chitin oligomer of C-type lysozyme from the upper gastrointestinal tract of Opisthocomus hoatzin==
		+	<StructureSection load='6t6c' size='340' side='right'caption='[[6t6c]], [[Resolution\|resolution]] 1.25Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[6t6c]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6T6C OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6T6C 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=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene>, <scene name='pdbligand=YYR:2-(acetylamino)-1,5-anhydro-2-deoxy-D-mannitol'>YYR</scene></td></tr>
		+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Lysozyme Lysozyme], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.1.17 3.2.1.17] </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=6t6c FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6t6c OCA], [http://pdbe.org/6t6c PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6t6c RCSB], [http://www.ebi.ac.uk/pdbsum/6t6c PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6t6c ProSAT]</span></td></tr>
		+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/LYSC_OPIHO LYSC_OPIHO]] Lysozymes have primarily a bacteriolytic function; those in tissues and body fluids are associated with the monocyte-macrophage system and enhance the activity of immunoagents.
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Muramidases/lysozymes are important bio-molecules, which cleave the glycan backbone in the peptidoglycan polymer found in bacterial cell walls. The glycoside hydrolase (GH) family 22 C-type lysozyme, from the folivorous bird Opisthocomus hoazin (stinkbird), was expressed in Aspergillus oryzae, and a set of variants was produced. All variants were enzymatically active, including those designed to probe key differences between the Hoatzin enzyme and Hen Egg White lysozyme. Four variants showed improved thermostability at pH 4.7, compared to the wild type. The X-ray structure of the enzyme was determined in the apo form and in complex with chitin oligomers. Bioinformatic analysis of avian GH22 amino acid sequences showed that they separate out into three distinct subgroups (chicken-like birds, sea birds and other birds). The Hoatzin is found in the "other birds" group and we propose that this represents a new cluster of avian upper-gut enzymes.

-	~~Authors: Taylor~~, ~~E.J~~., Skjot, M., Skov~~, L.K.~~, Klausen, M., De Maria, L., Gippert~~, G.P.~~, Turkenburg, J.P.~~, Davies, G~~.J.~~, Wilson, K.S~~.	+	The C-Type Lysozyme from the upper Gastrointestinal Tract of Opisthocomus hoatzin, the Stinkbird.,Taylor EJ, Skjot M, Skov LK, Klausen M, De Maria L, Gippert GP, Turkenburg JP, Davies GJ, Wilson KS Int J Mol Sci. 2019 Nov 6;20(22). pii: ijms20225531. doi: 10.3390/ijms20225531. PMID:31698762<ref>PMID:31698762</ref>

-	~~Description: Complex with chitin oligomer~~ of ~~C-type lysozyme from~~ the ~~upper gastrointestinal tract~~ of ~~Opisthocomus hoatzin~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	~~[[Category~~: ~~Unreleased Structures]]~~	+	</div>
-	[[Category: ~~Taylor, E.J~~]]	+	<div class="pdbe-citations 6t6c" style="background-color:#fffaf0;"></div>
-	[[Category: ~~Wilson, K.S~~]]	+	== References ==
-	[[Category: Davies, G.J]]	+	<references/>
-	~~[[Category: Turkenburg, J.P~~]]	+	__TOC__
-	[[Category: Gippert, G.P]]	+	</StructureSection>
		+	[[Category: Large Structures]]
		+	[[Category: Lysozyme]]
		+	[[Category: Davies, G J]]
		+	[[Category: Gippert, G P]]
	[[Category: Klausen, M]]		[[Category: Klausen, M]]
-	[[Category: ~~Skov~~, L~~.K]]~~	+	[[Category: Maria, L De]]
-	~~[[Category:~~ De ~~Maria, L~~]]	+
	[[Category: Skjot, M]]		[[Category: Skjot, M]]
		+	[[Category: Skov, L K]]
		+	[[Category: Taylor, E J]]
		+	[[Category: Turkenburg, J P]]
		+	[[Category: Wilson, K S]]
		+	[[Category: C-type lysoyme]]
		+	[[Category: Glycoside hydrolase]]
		+	[[Category: Hydrolase]]

OCA: Protected "6t6c" [edit=sysop:move=sysop]

OCA — Wed, 30 Oct 2019 07:26:33 GMT

Protected "6t6c" [edit=sysop:move=sysop]

←Older revision

Revision as of 07:26, 30 October 2019

OCA: New page: '''Unreleased structure''' The entry 6t6c is ON HOLD Authors: Taylor, E.J., Skjot, M., Skov, L.K., Klausen, M., De Maria, L., Gippert, G.P., Turkenburg, J.P., Davies, G.J., Wilson, K.S....

OCA — Wed, 30 Oct 2019 07:26:31 GMT

New page: '''Unreleased structure''' The entry 6t6c is ON HOLD Authors: Taylor, E.J., Skjot, M., Skov, L.K., Klausen, M., De Maria, L., Gippert, G.P., Turkenburg, J.P., Davies, G.J., Wilson, K.S....

New page

'''Unreleased structure'''

The entry 6t6c is ON HOLD

Authors: Taylor, E.J., Skjot, M., Skov, L.K., Klausen, M., De Maria, L., Gippert, G.P., Turkenburg, J.P., Davies, G.J., Wilson, K.S.

Description: Complex with chitin oligomer of C-type lysozyme from the upper gastrointestinal tract of Opisthocomus hoatzin
[[Category: Unreleased Structures]]
[[Category: Taylor, E.J]]
[[Category: Wilson, K.S]]
[[Category: Davies, G.J]]
[[Category: Turkenburg, J.P]]
[[Category: Gippert, G.P]]
[[Category: Klausen, M]]
[[Category: Skov, L.K]]
[[Category: De Maria, L]]
[[Category: Skjot, M]]