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| | ==SmChiA sliding-intermediate with chitopentaose== | | ==SmChiA sliding-intermediate with chitopentaose== |
| - | <StructureSection load='5z7n' size='340' side='right' caption='[[5z7n]], [[Resolution|resolution]] 1.70Å' scene=''> | + | <StructureSection load='5z7n' size='340' side='right'caption='[[5z7n]], [[Resolution|resolution]] 1.70Å' scene=''> |
| | == Structural highlights == | | == Structural highlights == |
| - | <table><tr><td colspan='2'>[[5z7n]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/"bacillus_marcescens"_(bizio_1823)_trevisan_in_de_toni_and_trevisan_1889 "bacillus marcescens" (bizio 1823) trevisan in de toni and trevisan 1889]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5Z7N OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5Z7N FirstGlance]. <br> | + | <table><tr><td colspan='2'>[[5z7n]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Serratia_marcescens Serratia marcescens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5Z7N OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5Z7N FirstGlance]. <br> |
| - | </td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CBS:DI(N-ACETYL-D-GLUCOSAMINE)'>CBS</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene>, <scene name='pdbligand=NDG:2-(ACETYLAMINO)-2-DEOXY-A-D-GLUCOPYRANOSE'>NDG</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]] 1.7Å</td></tr> |
| - | <tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">chiA ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=615 "Bacillus marcescens" (Bizio 1823) Trevisan in de Toni and Trevisan 1889])</td></tr>
| + | <tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene>, <scene name='pdbligand=NDG:2-(ACETYLAMINO)-2-DEOXY-A-D-GLUCOPYRANOSE'>NDG</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=5z7n FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5z7n OCA], [http://pdbe.org/5z7n PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5z7n RCSB], [http://www.ebi.ac.uk/pdbsum/5z7n PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5z7n 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=5z7n FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5z7n OCA], [https://pdbe.org/5z7n PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5z7n RCSB], [https://www.ebi.ac.uk/pdbsum/5z7n PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5z7n ProSAT]</span></td></tr> |
| | </table> | | </table> |
| | + | == Function == |
| | + | [https://www.uniprot.org/uniprot/CHIA_SERMA CHIA_SERMA] |
| | <div style="background-color:#fffaf0;"> | | <div style="background-color:#fffaf0;"> |
| | == Publication Abstract from PubMed == | | == Publication Abstract from PubMed == |
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| | </div> | | </div> |
| | <div class="pdbe-citations 5z7n" style="background-color:#fffaf0;"></div> | | <div class="pdbe-citations 5z7n" style="background-color:#fffaf0;"></div> |
| | + | |
| | + | ==See Also== |
| | + | *[[Chitinase 3D structures|Chitinase 3D structures]] |
| | == References == | | == References == |
| | <references/> | | <references/> |
| | __TOC__ | | __TOC__ |
| | </StructureSection> | | </StructureSection> |
| - | [[Category: Iino, R]] | + | [[Category: Large Structures]] |
| - | [[Category: Nakamura, A]] | + | [[Category: Serratia marcescens]] |
| - | [[Category: Chitinase]] | + | [[Category: Iino R]] |
| - | [[Category: Complex]] | + | [[Category: Nakamura A]] |
| - | [[Category: Hydrolase]]
| + | |
| - | [[Category: Intermediate]]
| + | |
| Structural highlights
Function
CHIA_SERMA
Publication Abstract from PubMed
Processive chitinase is a linear molecular motor which moves on the surface of crystalline chitin driven by processive hydrolysis of single chitin chain. Here, we analyse the mechanism underlying unidirectional movement of Serratia marcescens chitinase A (SmChiA) using high-precision single-molecule imaging, X-ray crystallography, and all-atom molecular dynamics simulation. SmChiA shows fast unidirectional movement of ~50 nm s(-1) with 1 nm forward and backward steps, consistent with the length of reaction product chitobiose. Analysis of the kinetic isotope effect reveals fast substrate-assisted catalysis with time constant of ~3 ms. Decrystallization of the single chitin chain from crystal surface is the rate-limiting step of movement with time constant of ~17 ms, achieved by binding free energy at the product-binding site of SmChiA. Our results demonstrate that SmChiA operates as a burnt-bridge Brownian ratchet wherein the Brownian motion along the single chitin chain is rectified forward by substrate-assisted catalysis.
Processive chitinase is Brownian monorail operated by fast catalysis after peeling rail from crystalline chitin.,Nakamura A, Okazaki KI, Furuta T, Sakurai M, Iino R Nat Commun. 2018 Sep 19;9(1):3814. doi: 10.1038/s41467-018-06362-3. PMID:30232340[1]
From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.
See Also
References
- ↑ Nakamura A, Okazaki KI, Furuta T, Sakurai M, Iino R. Processive chitinase is Brownian monorail operated by fast catalysis after peeling rail from crystalline chitin. Nat Commun. 2018 Sep 19;9(1):3814. doi: 10.1038/s41467-018-06362-3. PMID:30232340 doi:http://dx.doi.org/10.1038/s41467-018-06362-3
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