6hpf - Revision history

OCA at 11:36, 24 January 2024

2024-01-24T11:36:05Z

←Older revision		Revision as of 11:36, 24 January 2024
Line 1:		Line 1:

	==Structure of Inactive E165Q mutant of fungal non-CBM carrying GH26 endo-b-mannanase from Yunnania penicillata in complex with alpha-62-61-di-galactosyl-mannotriose==		==Structure of Inactive E165Q mutant of fungal non-CBM carrying GH26 endo-b-mannanase from Yunnania penicillata in complex with alpha-62-61-di-galactosyl-mannotriose==
-	<StructureSection load='6hpf' size='340' side='right' caption='[[6hpf]], [[Resolution\|resolution]] 1.36Å' scene=''>	+	<StructureSection load='6hpf' size='340' side='right'caption='[[6hpf]], [[Resolution\|resolution]] 1.36Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6hpf]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6HPF OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=6HPF FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6hpf]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Yunnania_penicillata Yunnania penicillata]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6HPF OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6HPF FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACY:ACETIC+ACID'>ACY</scene>, <scene name='pdbligand=BMA:BETA-D-MANNOSE'>BMA</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=GLA:ALPHA+D-GALACTOSE'>GLA</scene>, <scene name='pdbligand=MAN:ALPHA-D-MANNOSE'>MAN</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</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]] 1.36Å</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=6hpf FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6hpf OCA], [~~http~~://pdbe.org/6hpf PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=6hpf RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/6hpf PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=6hpf ProSAT]</span></td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ACY:ACETIC+ACID'>ACY</scene>, <scene name='pdbligand=BMA:BETA-D-MANNOSE'>BMA</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=GLA:ALPHA+D-GALACTOSE'>GLA</scene>, <scene name='pdbligand=MAN:ALPHA-D-MANNOSE'>MAN</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</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=6hpf FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6hpf OCA], [https://pdbe.org/6hpf PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6hpf RCSB], [https://www.ebi.ac.uk/pdbsum/6hpf PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6hpf ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/A0A3G4RHU4_9PEZI A0A3G4RHU4_9PEZI]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 20:		Line 23:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Agger, J W~~]]	+	[[Category: Large Structures]]
-	[[Category: ~~Blagova, E~~]]	+	[[Category: Yunnania penicillata]]
-	[[Category: ~~Davies, G J~~]]	+	[[Category: Agger JW]]
-	[[Category: ~~Freiesleben, P von~~]]	+	[[Category: Blagova E]]
-	[[Category: Krogh~~, K B.R M~~]]	+	[[Category: Davies GJ]]
-	[[Category: Meyer~~, A S~~]]	+	[[Category: Krogh KBRM]]
-	[[Category: Moroz~~, O V~~]]	+	[[Category: Meyer AS]]
-	[[Category: Spodsberg, N]]	+	[[Category: Moroz OV]]
-	[[Category: Stalbrand, H]]	+	[[Category: Spodsberg N]]
-	[[Category: Wiemann, M]]	+	[[Category: Stalbrand H]]
-	[[Category: Wilson~~, K S~~]]	+	[[Category: Wiemann M]]
-	[[Category: ~~Fungal]]~~	+	[[Category: Wilson KS]]
-	~~[[Category: Fungi]]~~	+	[[Category: Von Freiesleben P]]
-	~~[[Category: Galactomannan]]~~	+
-	~~[[Category: Gh26]]~~	+
-	~~[[Category: Hydrolase]]~~	+
-	~~[[Category: Mass spectrometry]]~~	+
-	~~[[Category: Non-cbm]]~~	+
-	~~[[Category: Substrate binding~~]]	+

OCA at 07:29, 6 March 2019

2019-03-06T07:29:40Z

←Older revision		Revision as of 07:29, 6 March 2019
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 6hpf ~~is ON HOLD~~ ~~until Paper~~ Publication	+	==Structure of Inactive E165Q mutant of fungal non-CBM carrying GH26 endo-b-mannanase from Yunnania penicillata in complex with alpha-62-61-di-galactosyl-mannotriose==
		+	<StructureSection load='6hpf' size='340' side='right' caption='[[6hpf]], [[Resolution\|resolution]] 1.36Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[6hpf]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6HPF OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6HPF FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACY:ACETIC+ACID'>ACY</scene>, <scene name='pdbligand=BMA:BETA-D-MANNOSE'>BMA</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=GLA:ALPHA+D-GALACTOSE'>GLA</scene>, <scene name='pdbligand=MAN:ALPHA-D-MANNOSE'>MAN</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></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=6hpf FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6hpf OCA], [http://pdbe.org/6hpf PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6hpf RCSB], [http://www.ebi.ac.uk/pdbsum/6hpf PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6hpf ProSAT]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Endo-beta(1 --> 4)-mannanases (endomannanases) catalyse degradation of beta-mannans, an abundant class of plant polysaccharides. This study investigates structural features and substrate binding of YpenMan26A, a non-CBM carrying endomannanase from Yunnania penicillata. Structural and sequence comparisons to other fungal family GH26 endomannanases showed high sequence similarities and conserved binding residues, indicating that fungal GH26 endomannanases accommodate galactopyranosyl units in the -3 and -2 subsites. Two striking amino acid differences in the active site were found when the YpenMan26A structure was compared to a homology model of Wsp.Man26A from Westerdykella sp. and the sequences of nine other fungal GH26 endomannanases. Two YpenMan26A mutants, W110H and D37T, inspired by differences observed in Wsp.Man26A, produced a shift in how mannopentaose bound across the active site cleft and a decreased affinity for galactose in the -2 subsite, respectively, compared to YpenMan26A. YpenMan26A was moreover found to have a flexible surface loop in the position where PansMan26A from Podospora anserina has an alpha-helix (alpha9) which interacts with its family 35 CBM. Sequence alignment inferred that the core structure of fungal GH26 endomannanases differ depending on the natural presence of this type of CBM. These new findings have implications for selecting and optimising these enzymes for galactomannandegradation.

-	~~Authors:~~ von Freiesleben, P., Moroz~~, O.V.~~, Blagova, E., Wiemann, M., Spodsberg, N., Agger~~, J.W.~~, Davies~~, G.J.~~, Wilson~~, K.S.~~, Stalbrand, H., Meyer~~, A.S.~~, Krogh~~, K~~.B.R.M.	+	Crystal structure and substrate interactions of an unusual fungal non-CBM carrying GH26 endo-beta-mannanase from Yunnania penicillata.,von Freiesleben P, Moroz OV, Blagova E, Wiemann M, Spodsberg N, Agger JW, Davies GJ, Wilson KS, Stalbrand H, Meyer AS, Krogh KBRM Sci Rep. 2019 Feb 19;9(1):2266. doi: 10.1038/s41598-019-38602-x. PMID:30783168<ref>PMID:30783168</ref>

-	~~Description: Structure~~ of ~~Inactive E165Q mutant~~ of ~~fungal non~~-~~CBM carrying GH26 endo~~-~~b-mannanase from Yunnania penicillata in complex with alpha-62-61-di-galactosyl-mannotriose~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	~~[[Category~~: ~~Unreleased Structures]]~~	+	</div>
-	~~[[Category: Agger, J.W]]~~	+	<div class="pdbe-citations 6hpf" style="background-color:#fffaf0;"></div>
-	~~[[Category: Meyer, A.S]]~~	+	== References ==
-	~~[[Category: Wiemann, M]]~~	+	<references/>
-	~~[[Category: Wilson, K.S]]~~	+	__TOC__
-	[[Category: ~~Krogh~~, ~~K.B.R.M]]~~	+	</StructureSection>
-	~~[[Category: Davies, G.~~J]]	+	[[Category: Agger, J W]]
-	~~[[Category: Moroz, O.V]]~~	+
-	~~[[Category: Stalbrand, H~~]]	+
	[[Category: Blagova, E]]		[[Category: Blagova, E]]
		+	[[Category: Davies, G J]]
		+	[[Category: Freiesleben, P von]]
		+	[[Category: Krogh, K B.R M]]
		+	[[Category: Meyer, A S]]
		+	[[Category: Moroz, O V]]
	[[Category: Spodsberg, N]]		[[Category: Spodsberg, N]]
-	[[Category: ~~Von Freiesleben~~, P]]	+	[[Category: Stalbrand, H]]
		+	[[Category: Wiemann, M]]
		+	[[Category: Wilson, K S]]
		+	[[Category: Fungal]]
		+	[[Category: Fungi]]
		+	[[Category: Galactomannan]]
		+	[[Category: Gh26]]
		+	[[Category: Hydrolase]]
		+	[[Category: Mass spectrometry]]
		+	[[Category: Non-cbm]]
		+	[[Category: Substrate binding]]

OCA at 06:12, 17 October 2018

2018-10-17T06:12:24Z

←Older revision		Revision as of 06:12, 17 October 2018
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 6hpf is ON HOLD	+	The entry 6hpf is ON HOLD until Paper Publication

-	Authors: von Freiesleben, P., Moroz, O.V., Blagova, E., Wiemann, M., Spodsberg, N., Agger, J.W., Davies, G.J., Wilson, K.S., ~~Staalbrand~~, H., Meyer, A.S., Krogh, K.B.R.M.	+	Authors: von Freiesleben, P., Moroz, O.V., Blagova, E., Wiemann, M., Spodsberg, N., Agger, J.W., Davies, G.J., Wilson, K.S., Stalbrand, H., Meyer, A.S., Krogh, K.B.R.M.

	Description: Structure of Inactive E165Q mutant of fungal non-CBM carrying GH26 endo-b-mannanase from Yunnania penicillata in complex with alpha-62-61-di-galactosyl-mannotriose		Description: Structure of Inactive E165Q mutant of fungal non-CBM carrying GH26 endo-b-mannanase from Yunnania penicillata in complex with alpha-62-61-di-galactosyl-mannotriose
	[[Category: Unreleased Structures]]		[[Category: Unreleased Structures]]
	[[Category: Agger, J.W]]		[[Category: Agger, J.W]]
-	[[Category: Staalbrand, H]]
	[[Category: Meyer, A.S]]		[[Category: Meyer, A.S]]
	[[Category: Wiemann, M]]		[[Category: Wiemann, M]]
Line 15:		Line 14:
	[[Category: Davies, G.J]]		[[Category: Davies, G.J]]
	[[Category: Moroz, O.V]]		[[Category: Moroz, O.V]]
		+	[[Category: Stalbrand, H]]
	[[Category: Blagova, E]]		[[Category: Blagova, E]]
	[[Category: Spodsberg, N]]		[[Category: Spodsberg, N]]
	[[Category: Von Freiesleben, P]]		[[Category: Von Freiesleben, P]]

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

2018-09-26T06:17:51Z

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

←Older revision

Revision as of 06:17, 26 September 2018

OCA: New page: '''Unreleased structure''' The entry 6hpf is ON HOLD Authors: von Freiesleben, P., Moroz, O.V., Blagova, E., Wiemann, M., Spodsberg, N., Agger, J.W., Davies, G.J., Wilson, K.S., Staalbr...

2018-09-26T06:17:50Z

New page: '''Unreleased structure''' The entry 6hpf is ON HOLD Authors: von Freiesleben, P., Moroz, O.V., Blagova, E., Wiemann, M., Spodsberg, N., Agger, J.W., Davies, G.J., Wilson, K.S., Staalbr...

New page

'''Unreleased structure'''

The entry 6hpf is ON HOLD

Authors: von Freiesleben, P., Moroz, O.V., Blagova, E., Wiemann, M., Spodsberg, N., Agger, J.W., Davies, G.J., Wilson, K.S., Staalbrand, H., Meyer, A.S., Krogh, K.B.R.M.

Description: Structure of Inactive E165Q mutant of fungal non-CBM carrying GH26 endo-b-mannanase from Yunnania penicillata in complex with alpha-62-61-di-galactosyl-mannotriose
[[Category: Unreleased Structures]]
[[Category: Agger, J.W]]
[[Category: Staalbrand, H]]
[[Category: Meyer, A.S]]
[[Category: Wiemann, M]]
[[Category: Wilson, K.S]]
[[Category: Krogh, K.B.R.M]]
[[Category: Davies, G.J]]
[[Category: Moroz, O.V]]
[[Category: Blagova, E]]
[[Category: Spodsberg, N]]
[[Category: Von Freiesleben, P]]