SMTL ID : 6kqt.1

Crystal Structure of GH136 lacto-N-biosidase from Eubacterium ramulus - native protein

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.00 Å

Oligo State

monomer

Ligands

1 x NAG- GAL: beta-D-galactopyranose-(1-3)-2-acetamido-2-deoxy-beta-D-glucopyranose(Non-covalent)

NAG-GAL.1: 17 residues within 4Å: Chain A: D.338, H.342, K.419, H.420, Y.466, D.504, V.543, A.544, A.545, W.548, W.550, D.570, D.575, D.577, S.578, M.598, C.600 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:H.342, A:K.419, A:K.419, A:K.419, A:D.504, A:D.570, A:D.577 Water bridges: A:D.338

1 x PGE: TRIETHYLENE GLYCOL(Non-functional Binders)

PGE.2: 8 residues within 4Å: Chain A: W.83, K.84, G.86, Y.588, V.613, V.615, Y.638, I.665 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:W.83

1 x NA: SODIUM ION(Non-functional Binders)

NA.3: 3 residues within 4Å: Chain A: R.396, G.397, T.398 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.396 Water bridges: A:T.398, A:H.400

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Pichler, M.J. et al., Butyrate producing colonic Clostridiales metabolise human milk oligosaccharides and cross feed on mucin via conserved pathways. Nat Commun (2020)

Release Date

2020-06-10

Peptides

lacto-N-biosidase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

lacto-N-biosidase

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