SMTL ID : 5mqm.1

Glycoside hydrolase BT_0986

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.11 Å

Oligo State

monomer

Ligands

3 x CA: CALCIUM ION(Non-covalent)

CA.1: 6 residues within 4Å: Chain A: D.458, S.459, E.538, E.561, E.593 Ligands: RPQ.4 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:D.458, A:S.459, A:E.538, A:E.561, A:E.593 CA.2: 4 residues within 4Å: Chain A: R.701, R.793, P.794, M.795 No protein-ligand interaction detected (PLIP) CA.3: 2 residues within 4Å: Chain A: G.689, N.796 No protein-ligand interaction detected (PLIP)

1 x RPQ: D-rhamnopyranose tetrazole(Non-covalent)

RPQ.4: 12 residues within 4Å: Chain A: Y.49, F.126, D.458, S.459, E.461, W.563, K.571, E.593, H.627, L.643, I.646 Ligands: CA.1 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:L.643, A:I.646 Hydrogen bonds: A:Y.49, A:K.571 Water bridges: A:F.126, A:S.459

2 x PG4: TETRAETHYLENE GLYCOL(Non-functional Binders)

PG4.5: 6 residues within 4Å: Chain A: K.81, E.85, A.410, T.411, L.643, D.644 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:K.81, A:D.644 PG4.6: 4 residues within 4Å: Chain A: Y.224, G.260, V.261, R.296 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:R.296

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

PGE.7: 8 residues within 4Å: Chain A: K.638, R.652, D.653, Q.654, A.960, W.1057, F.1071, D.1072 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:K.638, A:R.652 PGE.8: 4 residues within 4Å: Chain A: R.251, Q.268, E.302, G.303 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.251, A:E.302 Water bridges: A:Q.268

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Ndeh, D. et al., Complex pectin metabolism by gut bacteria reveals novel catalytic functions. Nature (2017)

Release Date

2017-03-22

Peptides

Glycosyl hydrolases family 2, sugar binding domain: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Glycosyl hydrolases family 2, sugar binding domain

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