SMTL ID : 5bxr.2 (1 other biounit)

LNBase in complex with LNB-NHAcDNJ

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.60 Å

Oligo State

monomer

Ligands

1 x GAL: beta-D-galactopyranose(Non-covalent)

GAL.1: 12 residues within 4Å: Chain A: C.168, C.170, Q.171, E.197, N.240, H.244, D.301, W.446, P.447, D.448, L.555 Ligands: NOK.2 13 PLIP interactions: 13 interactions with chain A Hydrogen bonds: A:Q.171, A:N.240, A:D.301, A:D.448, A:D.448 Water bridges: A:E.197, A:E.197, A:E.197, A:E.238, A:H.244, A:H.244, A:H.244, A:N.246

1 x NOK: 2-ACETAMIDO-1,2-DIDEOXYNOJIRMYCIN(Non-covalent)

NOK.2: 10 residues within 4Å: Chain A: H.244, D.301, E.302, W.354, W.375, Y.400, Y.408, W.446, D.448 Ligands: GAL.1 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:D.301, A:W.354, A:W.375, A:W.446 Hydrogen bonds: A:D.301, A:D.448 Water bridges: A:D.448, A:D.448

2 x SO4: SULFATE ION(Non-functional Binders)

SO4.3: 3 residues within 4Å: Chain A: Q.171, N.246, N.267 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:Q.171, A:N.246, A:N.267 Water bridges: A:H.244, A:H.244 SO4.4: 4 residues within 4Å: Chain A: S.404, A.405, Q.406, V.407 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Q.406, A:V.407

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Hattie, M. et al., Gaining insight into the catalysis by GH20 lacto-N-biosidase using small molecule inhibitors and structural analysis. Chem.Commun.(Camb.) (2015)

Release Date

2015-09-09

Peptides

Lacto-N-biosidase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

Lacto-N-biosidase

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