SMTL ID : 6f90.1 (1 other biounit)

Structure of the family GH92 alpha-mannosidase BT3130 from Bacteroides thetaiotaomicron in complex with Mannoimidazole (ManI)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.40 Å

Oligo State

homo-dimer

Ligands

2 x CA: CALCIUM ION(Non-covalent)

CA.1: 4 residues within 4Å: Chain A: N.578, E.579, D.621 Ligands: MVL.2 5 PLIP interactions: 2 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:E.579, A:D.621, H2O.3, H2O.3, H2O.10 CA.3: 4 residues within 4Å: Chain B: N.578, E.579, D.621 Ligands: MVL.4 5 PLIP interactions: 2 interactions with chain B, 3 Ligand-Water interactions Metal complexes: B:E.579, B:D.621, H2O.29, H2O.29, H2O.36

2 x MVL: (5R,6R,7S,8R)-5-(HYDROXYMETHYL)-5,6,7,8-TETRAHYDROIMIDAZO[1,2-A]PYRIDINE-6,7,8-TRIOL(Non-covalent)

MVL.2: 16 residues within 4Å: Chain A: T.75, G.76, A.77, W.182, S.334, W.336, D.337, W.374, C.383, M.384, E.519, N.566, N.578, E.579, D.621 Ligands: CA.1 11 PLIP interactions: 11 interactions with chain A Hydrogen bonds: A:G.76, A:A.77, A:D.337, A:N.566, A:N.566, A:N.578, A:D.621 Water bridges: A:S.334, A:E.519, A:N.619, A:N.619 MVL.4: 16 residues within 4Å: Chain B: T.75, G.76, A.77, W.182, S.334, W.336, D.337, W.374, C.383, M.384, E.519, N.566, N.578, E.579, D.621 Ligands: CA.3 10 PLIP interactions: 10 interactions with chain B Hydrogen bonds: B:G.76, B:A.77, B:D.337, B:N.566, B:N.566, B:N.578, B:E.579 Water bridges: B:S.334, B:N.619, B:N.619

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Thompson, A.J. et al., Bacteroides thetaiotaomicron generates diverse alpha-mannosidase activities through subtle evolution of a distal substrate-binding motif. Acta Crystallogr D Struct Biol (2018)

Release Date

2018-05-02

Peptides

Alpha-1,2-mannosidase, putative: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

Alpha-1,2-mannosidase, putative

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