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TitleIdentification and characterization of endo-alpha-, exo-alpha-, and exo-beta-D-arabinofuranosidases degrading lipoarabinomannan and arabinogalactan of mycobacteria.
Journal, issue, pagesNat Commun, Vol. 14, Page 5803-5803, Year 2023
Publish dateNov 17, 2022 (structure data deposition date)
AuthorsShimokawa, M. / Ishiwata, A. / Kashima, T. / Nakashima, C. / Li, J. / Fukushima, R. / Sawai, N. / Nakamori, M. / Tanaka, Y. / Kudo, A. ...Shimokawa, M. / Ishiwata, A. / Kashima, T. / Nakashima, C. / Li, J. / Fukushima, R. / Sawai, N. / Nakamori, M. / Tanaka, Y. / Kudo, A. / Morikami, S. / Iwanaga, N. / Akai, G. / Shimizu, N. / Arakawa, T. / Yamada, C. / Kitahara, K. / Tanaka, K. / Ito, Y. / Fushinobu, S. / Fujita, K.
External linksNat Commun / PubMed:37726269
MethodsX-ray diffraction
Resolution1.35 - 2.42 Å
Structure data

PDB-8hhv:
endo-alpha-D-arabinanase EndoMA1 from Microbacterium arabinogalactanolyticum
Method: X-RAY DIFFRACTION / Resolution: 1.6 Å

PDB-8ic1:
endo-alpha-D-arabinanase EndoMA1 D51N mutant from Microbacterium arabinogalactanolyticum in complex with arabinooligosaccharides
Method: X-RAY DIFFRACTION / Resolution: 1.8 Å

PDB-8ic6:
exo-beta-D-arabinanase ExoMA2 from Microbacterium arabinogalactanolyticum in complex with Tris
Method: X-RAY DIFFRACTION / Resolution: 1.75 Å

PDB-8ic7:
exo-beta-D-arabinofuranosidase ExoMA2 from Microbacterium arabinogalactanolyticum in complex with beta-D-arabinofuranose
Method: X-RAY DIFFRACTION / Resolution: 1.35 Å

PDB-8ic8:
Exo-alpha-D-arabinofuranosidase from Microbacterium arabinogalactanolyticum
Method: X-RAY DIFFRACTION / Resolution: 2.42 Å

Chemicals

ChemComp-NA:
Unknown entry

ChemComp-CA:
Unknown entry

ChemComp-GOL:
GLYCEROL

ChemComp-HOH:
WATER

ChemComp-PGE:
TRIETHYLENE GLYCOL

ChemComp-PEG:
DI(HYDROXYETHYL)ETHER

ChemComp-OYO:
(3~{a}~{S},5~{R},6~{R},6~{a}~{S})-5-(hydroxymethyl)-2,2-dimethyl-3~{a},5,6,6~{a}-tetrahydrofuro[2,3-d][1,3]dioxol-6-ol

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

ChemComp-MG:
Unknown entry

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

ChemComp-MPD:
(4S)-2-METHYL-2,4-PENTANEDIOL / precipitant*YM

ChemComp-MLI:
MALONATE ION

ChemComp-CL:
Unknown entry

ChemComp-BXX:
beta-D-arabinofuranose

ChemComp-PO4:
PHOSPHATE ION

Source
  • microbacterium arabinogalactanolyticum (bacteria)
KeywordsHYDROLASE / D-arabinan / anomer-retaining glycoside hydrolase / Glycoside Hydrolase / Glycoside hydrolase family 172

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