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| - | ==THE STRUCTURE OF A GLYCOSIDE HYDROLASE FAMILY 61 MEMBER, CEL61B FROM THE HYPOCREA JECORINA.== | + | |
| - | <StructureSection load='2vtc' size='340' side='right' caption='[[2vtc]], [[Resolution|resolution]] 1.60Å' scene=''> | + | ==The structure of a glycoside hydrolase family 61 member, Cel61B from the Hypocrea jecorina.== |
| | + | <StructureSection load='2vtc' size='340' side='right'caption='[[2vtc]], [[Resolution|resolution]] 1.60Å' scene=''> |
| | == Structural highlights == | | == Structural highlights == |
| - | <table><tr><td colspan='2'>[[2vtc]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Trichoderma_reesei Trichoderma reesei]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2VTC OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2VTC FirstGlance]. <br> | + | <table><tr><td colspan='2'>[[2vtc]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Trichoderma_reesei Trichoderma reesei]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2VTC OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2VTC FirstGlance]. <br> |
| - | </td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=NI:NICKEL+(II)+ION'>NI</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]] 1.6Å</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=2vtc FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2vtc OCA], [http://pdbe.org/2vtc PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2vtc RCSB], [http://www.ebi.ac.uk/pdbsum/2vtc PDBsum]</span></td></tr> | + | <tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene>, <scene name='pdbligand=NI:NICKEL+(II)+ION'>NI</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=2vtc FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2vtc OCA], [https://pdbe.org/2vtc PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2vtc RCSB], [https://www.ebi.ac.uk/pdbsum/2vtc PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2vtc ProSAT]</span></td></tr> |
| | </table> | | </table> |
| | == Function == | | == Function == |
| - | [[http://www.uniprot.org/uniprot/GUN7_HYPJQ GUN7_HYPJQ]] Has low levels of endoglucanase activity. May be involved in the degradation of cellulose or lignocellulose, chitin, or other polysaccharides. | + | [https://www.uniprot.org/uniprot/LP9B_HYPJQ LP9B_HYPJQ] Lytic polysaccharide monooxygenase (LPMO) that depolymerizes crystalline and amorphous polysaccharides via the oxidation of scissile alpha- or beta-(1-4)-glycosidic bonds, yielding C1 or C4 oxidation products (PubMed:18723026). Catalysis by LPMOs requires the reduction of the active-site copper from Cu(II) to Cu(I) by a reducing agent and H(2)O(2) or O(2) as a cosubstrate (PubMed:18723026).<ref>PMID:18723026</ref> |
| | == Evolutionary Conservation == | | == Evolutionary Conservation == |
| | [[Image:Consurf_key_small.gif|200px|right]] | | [[Image:Consurf_key_small.gif|200px|right]] |
| | Check<jmol> | | Check<jmol> |
| | <jmolCheckbox> | | <jmolCheckbox> |
| - | <scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/vt/2vtc_consurf.spt"</scriptWhenChecked> | + | <scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/vt/2vtc_consurf.spt"</scriptWhenChecked> |
| - | <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked> | + | <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview03.spt</scriptWhenUnchecked> |
| | <text>to colour the structure by Evolutionary Conservation</text> | | <text>to colour the structure by Evolutionary Conservation</text> |
| | </jmolCheckbox> | | </jmolCheckbox> |
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| | __TOC__ | | __TOC__ |
| | </StructureSection> | | </StructureSection> |
| | + | [[Category: Large Structures]] |
| | [[Category: Trichoderma reesei]] | | [[Category: Trichoderma reesei]] |
| - | [[Category: Hansson, H]] | + | [[Category: Hansson H]] |
| - | [[Category: Karkehabadi, S]] | + | [[Category: Karkehabadi S]] |
| - | [[Category: Kim, S]] | + | [[Category: Kim S]] |
| - | [[Category: Mitchinson, C]] | + | [[Category: Mitchinson C]] |
| - | [[Category: Piens, K]] | + | [[Category: Piens K]] |
| - | [[Category: Sandgren, M]] | + | [[Category: Sandgren M]] |
| - | [[Category: Cellulase]]
| + | |
| - | [[Category: Glycoside]]
| + | |
| - | [[Category: Hydrolase]]
| + | |
| Structural highlights
Function
LP9B_HYPJQ Lytic polysaccharide monooxygenase (LPMO) that depolymerizes crystalline and amorphous polysaccharides via the oxidation of scissile alpha- or beta-(1-4)-glycosidic bonds, yielding C1 or C4 oxidation products (PubMed:18723026). Catalysis by LPMOs requires the reduction of the active-site copper from Cu(II) to Cu(I) by a reducing agent and H(2)O(2) or O(2) as a cosubstrate (PubMed:18723026).[1]
Evolutionary Conservation
Check, as determined by ConSurfDB. You may read the explanation of the method and the full data available from ConSurf.
Publication Abstract from PubMed
The glycoside hydrolase (GH) family 61 is a long-recognized, but still recondite, class of proteins, with little known about the activity, mechanism or function of its more than 70 members. The best-studied GH family 61 member, Cel61A of the filamentous fungus Hypocrea jecorina, is known to be an endoglucanase, but it is not clear if this represents the main activity or function of this family in vivo. We present here the first structure for this family, that of Cel61B from H. jecorina. The best-quality crystals were formed in the presence of nickel, and the crystal structure was solved to 1.6 A resolution using a single-wavelength anomalous dispersion method with nickel as the source of anomalous scatter. Cel61B lacks a carbohydrate-binding module and is a single-domain protein that folds into a twisted beta-sandwich. A structure-aided sequence alignment of all GH family 61 proteins identified a highly conserved group of residues on the surface of Cel61B. Within this patch of mostly polar amino acids was a site occupied by the intramolecular nickel hexacoordinately bound in the solved structure. In the Cel61B structure, there is no easily identifiable carbohydrate-binding cleft or pocket or catalytic center of the types normally seen in GHs. A structural comparison search showed that the known structure most similar to Cel61B is that of CBP21 from the Gram-negative soil bacterium Serratia marcescens, a member of the carbohydrate-binding module family 33 proteins. A polar surface patch highly conserved in that structural family has been identified in CBP21 and shown to be involved in chitin binding and in the protein's enhancement of chitinase activities. The analysis of the Cel61B structure is discussed in light of our continuing research to better understand the activities and function of GH family 61.
The first structure of a glycoside hydrolase family 61 member, Cel61B from Hypocrea jecorina, at 1.6 A resolution.,Karkehabadi S, Hansson H, Kim S, Piens K, Mitchinson C, Sandgren M J Mol Biol. 2008 Oct 31;383(1):144-54. Epub 2008 Aug 13. PMID:18723026[2]
From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.
References
- ↑ Karkehabadi S, Hansson H, Kim S, Piens K, Mitchinson C, Sandgren M. The first structure of a glycoside hydrolase family 61 member, Cel61B from Hypocrea jecorina, at 1.6 A resolution. J Mol Biol. 2008 Oct 31;383(1):144-54. Epub 2008 Aug 13. PMID:18723026 doi:10.1016/j.jmb.2008.08.016
- ↑ Karkehabadi S, Hansson H, Kim S, Piens K, Mitchinson C, Sandgren M. The first structure of a glycoside hydrolase family 61 member, Cel61B from Hypocrea jecorina, at 1.6 A resolution. J Mol Biol. 2008 Oct 31;383(1):144-54. Epub 2008 Aug 13. PMID:18723026 doi:10.1016/j.jmb.2008.08.016
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