SMTL ID : 7dif.1

GH127 beta-L-arabinofuranosidase HypBA1 covalently complexed with beta-L-arabinofuranose-configured cyclophellitol at 1.75-angstrom resolution

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.75 Å

Oligo State

homo-dimer

Ligands

2 x ZN: ZINC ION(Non-covalent)

ZN.1: 5 residues within 4Å: Chain A: E.338, C.340, C.417, C.418 Ligands: FE0.2 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:E.338, A:C.340, A:C.417, A:C.418 ZN.4: 5 residues within 4Å: Chain B: E.338, C.340, C.417, C.418 Ligands: FE0.5 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:E.338, B:C.340, B:C.417, B:C.418

2 x FE0: (1S,2S,3R,4R)-3-(hydroxymethyl)cyclopentane-1,2,4-triol(Covalent)

FE0.2: 12 residues within 4Å: Chain A: F.73, H.142, Y.145, H.194, H.270, V.272, E.322, E.338, Y.386, C.415, C.417 Ligands: ZN.1 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:H.142, A:H.194, A:H.270, A:Y.386 Water bridges: A:H.142, A:R.273 FE0.5: 12 residues within 4Å: Chain B: F.73, H.142, Y.145, H.194, H.270, V.272, E.322, E.338, Y.386, C.415, C.417 Ligands: ZN.4 7 PLIP interactions: 7 interactions with chain B Hydrogen bonds: B:H.142, B:H.194, B:H.270, B:Y.386 Water bridges: B:H.142, B:Y.145, B:R.273

2 x K: POTASSIUM ION(Non-covalent)

K.3: 7 residues within 4Å: Chain A: V.72, F.73, D.119, S.141, H.142, E.143, V.146 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:V.72, A:D.119, A:S.141 K.6: 7 residues within 4Å: Chain B: V.72, F.73, D.119, S.141, H.142, E.143, V.146 3 PLIP interactions: 3 interactions with chain B Metal complexes: B:V.72, B:D.119, B:S.141

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

McGregor, N.G.S. et al., Cysteine Nucleophiles in Glycosidase Catalysis: Application of a Covalent beta-l-Arabinofuranosidase Inhibitor. Angew.Chem.Int.Ed.Engl. (2021)

Release Date

2021-01-27

Peptides

Non-reducing end beta-L-arabinofuranosidase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

Non-reducing end beta-L-arabinofuranosidase

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