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| | <StructureSection load='6mi1' size='340' side='right'caption='[[6mi1]], [[Resolution|resolution]] 2.30Å' scene=''> | | <StructureSection load='6mi1' size='340' side='right'caption='[[6mi1]], [[Resolution|resolution]] 2.30Å' scene=''> |
| | == Structural highlights == | | == Structural highlights == |
| - | <table><tr><td colspan='2'>[[6mi1]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Domesticated_barley Domesticated barley]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=3wls 3wls]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6MI1 OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=6MI1 FirstGlance]. <br> | + | <table><tr><td colspan='2'>[[6mi1]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Hordeum_vulgare_subsp._vulgare Hordeum vulgare subsp. vulgare]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=3wls 3wls]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6MI1 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6MI1 FirstGlance]. <br> |
| - | </td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=BGC:BETA-D-GLUCOSE'>BGC</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</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]] 2.3Å</td></tr> |
| - | <tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=U1Y:'>U1Y</scene></td></tr>
| + | <tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=BGC:BETA-D-GLUCOSE'>BGC</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene>, <scene name='pdbligand=PRD_900098:METHYL+6-THIO-BETA-GENTIOBIOSIDE'>PRD_900098</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>, <scene name='pdbligand=U1Y:methyl+6-thio-beta-D-glucopyranoside'>U1Y</scene></td></tr> |
| - | <tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[1ex1|1ex1]], [[1ieq|1ieq]], [[1iev|1iev]], [[1iew|1iew]], [[1iex|1iex]], [[1j8v|1j8v]], [[3wlh|3wlh]], [[3wli|3wli]], [[3wlj|3wlj]], [[3wlk|3wlk]], [[3wll|3wll]], [[3wlm|3wlm]], [[3wln|3wln]], [[3wlo|3wlo]], [[3wlp|3wlp]], [[3wlq|3wlq]], [[3wlr|3wlr]], [[3wlt|3wlt]]</div></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=6mi1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6mi1 OCA], [https://pdbe.org/6mi1 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6mi1 RCSB], [https://www.ebi.ac.uk/pdbsum/6mi1 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6mi1 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=6mi1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6mi1 OCA], [http://pdbe.org/6mi1 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6mi1 RCSB], [http://www.ebi.ac.uk/pdbsum/6mi1 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6mi1 ProSAT]</span></td></tr> | + | |
| | </table> | | </table> |
| | + | == Function == |
| | + | [https://www.uniprot.org/uniprot/Q9XEI3_HORVV Q9XEI3_HORVV] |
| | <div style="background-color:#fffaf0;"> | | <div style="background-color:#fffaf0;"> |
| | == Publication Abstract from PubMed == | | == Publication Abstract from PubMed == |
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| | __TOC__ | | __TOC__ |
| | </StructureSection> | | </StructureSection> |
| - | [[Category: Domesticated barley]] | + | [[Category: Hordeum vulgare subsp. vulgare]] |
| | [[Category: Large Structures]] | | [[Category: Large Structures]] |
| - | [[Category: Hrmova, M]] | + | [[Category: Hrmova M]] |
| - | [[Category: Luang, S]] | + | [[Category: Luang S]] |
| - | [[Category: Streltsov, V A]] | + | [[Category: Streltsov VA]] |
| - | [[Category: Beta barrel]]
| + | |
| - | [[Category: Grain development]]
| + | |
| - | [[Category: Hydrolase]]
| + | |
| - | [[Category: N-glycosylation]]
| + | |
| - | [[Category: Plant apoplast]]
| + | |
| - | [[Category: Tim barrel/beta sheet]]
| + | |
| Structural highlights
6mi1 is a 1 chain structure with sequence from Hordeum vulgare subsp. vulgare. This structure supersedes the now removed PDB entry 3wls. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
| | Method: | X-ray diffraction, Resolution 2.3Å |
| Ligands: | , , , , , |
| Resources: | FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT |
Function
Q9XEI3_HORVV
Publication Abstract from PubMed
Substrates associate and products dissociate from enzyme catalytic sites rapidly, which hampers investigations of their trajectories. The high-resolution structure of the native Hordeum exo-hydrolase HvExoI isolated from seedlings reveals that non-covalently trapped glucose forms a stable enzyme-product complex. Here, we report that the alkyl beta-D-glucoside and methyl 6-thio-beta-gentiobioside substrate analogues perfused in crystalline HvExoI bind across the catalytic site after they displace glucose, while methyl 2-thio-beta-sophoroside attaches nearby. Structural analyses and multi-scale molecular modelling of nanoscale reactant movements in HvExoI reveal that upon productive binding of incoming substrates, the glucose product modifies its binding patterns and evokes the formation of a transient lateral cavity, which serves as a conduit for glucose departure to allow for the next catalytic round. This path enables substrate-product assisted processive catalysis through multiple hydrolytic events without HvExoI losing contact with oligo- or polymeric substrates. We anticipate that such enzyme plasticity could be prevalent among exo-hydrolases.
Discovery of processive catalysis by an exo-hydrolase with a pocket-shaped active site.,Streltsov VA, Luang S, Peisley A, Varghese JN, Ketudat Cairns JR, Fort S, Hijnen M, Tvaroska I, Arda A, Jimenez-Barbero J, Alfonso-Prieto M, Rovira C, Mendoza F, Tiessler-Sala L, Sanchez-Aparicio JE, Rodriguez-Guerra J, Lluch JM, Marechal JD, Masgrau L, Hrmova M Nat Commun. 2019 May 20;10(1):2222. doi: 10.1038/s41467-019-09691-z. PMID:31110237[1]
From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.
References
- ↑ Streltsov VA, Luang S, Peisley A, Varghese JN, Ketudat Cairns JR, Fort S, Hijnen M, Tvaroska I, Arda A, Jimenez-Barbero J, Alfonso-Prieto M, Rovira C, Mendoza F, Tiessler-Sala L, Sanchez-Aparicio JE, Rodriguez-Guerra J, Lluch JM, Marechal JD, Masgrau L, Hrmova M. Discovery of processive catalysis by an exo-hydrolase with a pocket-shaped active site. Nat Commun. 2019 May 20;10(1):2222. doi: 10.1038/s41467-019-09691-z. PMID:31110237 doi:http://dx.doi.org/10.1038/s41467-019-09691-z
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