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Structure paper

TitleStructural insights into beta-1,3-glucan cleavage by a glycoside hydrolase family.
Journal, issue, pagesNat. Chem. Biol., Vol. 16, Page 920-929, Year 2020
Publish dateSep 11, 2019 (structure data deposition date)
AuthorsSantos, C.R. / Costa, P.A.C.R. / Vieira, P.S. / Gonzalez, S.E.T. / Correa, T.L.R. / Lima, E.A. / Mandelli, F. / Pirolla, R.A.S. / Domingues, M.N. / Cabral, L. ...Santos, C.R. / Costa, P.A.C.R. / Vieira, P.S. / Gonzalez, S.E.T. / Correa, T.L.R. / Lima, E.A. / Mandelli, F. / Pirolla, R.A.S. / Domingues, M.N. / Cabral, L. / Martins, M.P. / Cordeiro, R.L. / Junior, A.T. / Souza, B.P. / Prates, E.T. / Gozzo, F.C. / Persinoti, G.F. / Skaf, M.S. / Murakami, M.T.
External linksNat. Chem. Biol. / PubMed:32451508
MethodsX-ray diffraction
Resolution1.15 - 2.4 Å
Structure data

PDB-6uaq:
Crystal structure of a GH128 (subgroup I) endo-beta-1,3-glucanase from Amycolatopsis mediterranei (AmGH128_I)
Method: X-RAY DIFFRACTION / Resolution: 1.15 Å

PDB-6uar:
Crystal structure of a GH128 (subgroup I) endo-beta-1,3-glucanase from Amycolatopsis mediterranei (AmGH128_I) in complex with laminaritriose
Method: X-RAY DIFFRACTION / Resolution: 1.4 Å

PDB-6uas:
Crystal structure of a GH128 (subgroup I) endo-beta-1,3-glucanase (E199A mutant) from Amycolatopsis mediterranei (AmGH128_I) in complex with laminaripentaose
Method: X-RAY DIFFRACTION / Resolution: 1.91 Å

PDB-6uat:
Crystal structure of a GH128 (subgroup I) endo-beta-1,3-glucanase (E102A mutant) from Amycolatopsis mediterranei (AmGH128_I) in complex with laminaripentaose
Method: X-RAY DIFFRACTION / Resolution: 1.9 Å

PDB-6uau:
Crystal structure of a GH128 (subgroup I) endo-beta-1,3-glucanase (E102A mutant) from Amycolatopsis mediterranei (AmGH128_I) in complex with laminaritriose and laminaribiose
Method: X-RAY DIFFRACTION / Resolution: 1.9 Å

PDB-6uav:
Crystal structure of a GH128 (subgroup II) endo-beta-1,3-glucanase from Pseudomonas viridiflava (PvGH128_II)
Method: X-RAY DIFFRACTION / Resolution: 1.5 Å

PDB-6uaw:
Crystal structure of a GH128 (subgroup II) endo-beta-1,3-glucanase from Pseudomonas viridiflava (PvGH128_II) in complex with laminaritriose
Method: X-RAY DIFFRACTION / Resolution: 1.5 Å

PDB-6uax:
Crystal structure of a GH128 (subgroup II) endo-beta-1,3-glucanase from Sorangium cellulosum (ScGH128_II)
Method: X-RAY DIFFRACTION / Resolution: 1.3 Å

PDB-6uay:
Crystal structure of a GH128 (subgroup III) curdlan-specific exo-beta-1,3-glucanase from Blastomyces gilchristii (BgGH128_III)
Method: X-RAY DIFFRACTION / Resolution: 1.8 Å

PDB-6uaz:
Crystal structure of a GH128 (subgroup III) curdlan-specific exo-beta-1,3-glucanase from Blastomyces gilchristii (BgGH128_III) in complex with glucose
Method: X-RAY DIFFRACTION / Resolution: 1.85 Å

PDB-6ub0:
Crystal structure of a GH128 (subgroup III) curdlan-specific exo-beta-1,3-glucanase from Blastomyces gilchristii (BgGH128_III) in complex with laminaribiose at -2 and -1 subsites
Method: X-RAY DIFFRACTION / Resolution: 1.75 Å

PDB-6ub1:
Crystal structure of a GH128 (subgroup III) curdlan-specific exo-beta-1,3-glucanase from Blastomyces gilchristii (BgGH128_III) in complex with laminaribiose at -3 and -2 subsites
Method: X-RAY DIFFRACTION / Resolution: 1.6 Å

PDB-6ub2:
Crystal structure of a GH128 (subgroup IV) endo-beta-1,3-glucanase from Lentinula edodes (LeGH128_IV)
Method: X-RAY DIFFRACTION / Resolution: 1.8 Å

PDB-6ub3:
Crystal structure of a GH128 (subgroup IV) endo-beta-1,3-glucanase from Lentinula edodes (LeGH128_IV) with laminaribiose at the surface-binding site
Method: X-RAY DIFFRACTION / Resolution: 1.85 Å

PDB-6ub4:
Crystal structure (C2 form) of a GH128 (subgroup IV) endo-beta-1,3-glucanase from Lentinula edodes (LeGH128_IV) in complex with laminaritriose
Method: X-RAY DIFFRACTION / Resolution: 1.6 Å

PDB-6ub5:
Crystal structure (P21 form) of a GH128 (subgroup IV) endo-beta-1,3-glucanase from Lentinula edodes (LeGH128_IV) in complex with laminaritriose
Method: X-RAY DIFFRACTION / Resolution: 1.3 Å

PDB-6ub6:
Crystal structure of a GH128 (subgroup IV) endo-beta-1,3-glucanase from Lentinula edodes (LeGH128_IV) in complex with laminaritetraose
Method: X-RAY DIFFRACTION / Resolution: 1.25 Å

PDB-6ub7:
Crystal structure of a GH128 (subgroup V) exo-beta-1,3-glucanase from Cryptococcus neoformans (CnGH128_V)
Method: X-RAY DIFFRACTION / Resolution: 1.8 Å

PDB-6ub8:
Crystal structure of a GH128 (subgroup VI) exo-beta-1,3-glucanase from Aureobasidium namibiae (AnGH128_VI)
Method: X-RAY DIFFRACTION / Resolution: 1.9 Å

PDB-6uba:
Crystal structure of a GH128 (subgroup VI) exo-beta-1,3-glucanase from Aureobasidium namibiae (AnGH128_VI) in complex with laminaritriose
Method: X-RAY DIFFRACTION / Resolution: 2.4 Å

PDB-6ubb:
Crystal structure of a GH128 (subgroup VI) exo-beta-1,3-glucanase from Aureobasidium namibiae (AnGH128_VI) with laminaribiose at the surface-binding site
Method: X-RAY DIFFRACTION / Resolution: 2.35 Å

PDB-6ubc:
Crystal structure of a GH128 (subgroup VII) oligosaccharide-binding protein from Cryptococcus neoformans (CnGH128_VII)
Method: X-RAY DIFFRACTION / Resolution: 1.65 Å

PDB-6ubd:
Crystal structure of a GH128 (subgroup VII) oligosaccharide-binding protein from Trichoderma gamsii (TgGH128_VII)
Method: X-RAY DIFFRACTION / Resolution: 1.25 Å

PDB-6ufl:
Crystal structure of a GH128 (subgroup I) endo-beta-1,3-glucanase (E199Q mutant) from Amycolatopsis mediterranei (AmGH128_I) in the complex with laminarihexaose
Method: X-RAY DIFFRACTION / Resolution: 1.61 Å

PDB-6ufz:
Crystal structure of a GH128 (subgroup I) endo-beta-1,3-glucanase (E199Q mutant) from Amycolatopsis mediterranei (AmGH128_I)
Method: X-RAY DIFFRACTION / Resolution: 1.9 Å

Chemicals

ChemComp-GOL:
GLYCEROL / Glycerol

ChemComp-NA:
Unknown entry

ChemComp-HOH:
WATER / Water

ChemComp-BGC:
beta-D-glucopyranose / Glucose

ChemComp-ZN:
Unknown entry

ChemComp-PEG:
DI(HYDROXYETHYL)ETHER / Diethylene glycol

ChemComp-SO4:
SULFATE ION / Sulfate

ChemComp-TRS:
2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL / pH buffer*YM / Tris

ChemComp-EPE:
4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID / pH buffer*YM / HEPES

ChemComp-CA:
Unknown entry

ChemComp-CL:
Unknown entry / Chloride

ChemComp-MES:
2-(N-MORPHOLINO)-ETHANESULFONIC ACID / pH buffer*YM / MES (buffer)

ChemComp-K:
Unknown entry

Source
  • amycolatopsis mediterranei (bacteria)
  • pseudomonas viridiflava (bacteria)
  • sorangium cellulosum so ce56 (bacteria)
  • blastomyces gilchristii (fungus)
  • blastomyces gilchristii (strain slh14081) (fungus)
  • lentinula edodes (shiitake mushroom)
  • cryptococcus neoformans (fungus)
  • aureobasidium namibiae cbs 147.97 (fungus)
  • trichoderma gamsii (fungus)
KeywordsHYDROLASE / Glycosyl hydrolase / CARBOHYDRATE

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