SMTL ID : 7zvo.1

Structure of CBM BT0996-C from Bacteroides thetaiotaomicron

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.65 Å

Oligo State

monomer

Ligands

1 x MPD: (4S)-2-METHYL-2,4-PENTANEDIOL(Non-functional Binders)

MPD.1: 4 residues within 4Å: Chain A: E.35, H.36, F.43, D.104 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:F.43, A:D.104 Water bridges: A:T.73

1 x SER: SERINE(Non-covalent)

SER.2: 3 residues within 4Å: Chain A: I.96, A.128, E.129 4 PLIP interactions: 2 Ligand-Ligand interactions, 2 interactions with chain A Hydrogen bonds: S.2, S.2, A:E.129 Water bridges: A:N.130

1 x BME: BETA-MERCAPTOETHANOL(Non-functional Binders)

BME.3: 1 residues within 4Å: Chain A: P.14 No protein-ligand interaction detected (PLIP)

1 x ALA: ALANINE(Non-covalent)

ALA.4: 5 residues within 4Å: Chain A: G.17, L.18, R.19, R.67, D.140 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:R.19, A:D.140 Hydrogen bonds: A:R.67

1 x CA: CALCIUM ION(Non-covalent)

CA.5: 4 residues within 4Å: Chain A: E.21, E.23, T.40, D.137 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:E.21, A:E.23, A:T.40, A:D.137, H2O.4

2 x CL: CHLORIDE ION(Non-functional Binders)

CL.6: 3 residues within 4Å: Chain A: R.37, K.105, W.106 Ligand excluded by PLIP CL.7: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Trovao, F. et al., The structure of a Bacteroides thetaiotaomicron carbohydrate-binding module provides new insight into the recognition of complex pectic polysaccharides by the human microbiome. J Struct Biol X (2023)

Release Date

2023-02-08

Peptides

Beta-galactosidase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Beta-galactosidase