SMTL ID : 5mwk.1

Glycoside hydrolase BT_0986

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.00 Å

Oligo State

monomer

Ligands

1 x RAM- 8OQ- GAL- ARA- RAM- 8PK: alpha-L-rhamnopyranose-(1-2)-alpha-L-arabinopyranose-(1-4)-[4-O-[(1R)-1-hydroxyethyl]-2-O-methyl-alpha-L-fucopyranose-(1-2)]beta-D-galactopyranose-(1-2)-alpha-D-aceric acid-(1-3)-alpha-L-rhamnopyranose

RAM-8OQ-GAL-ARA-RAM-8PK.1: 19 residues within 4Å: Chain A: Y.49, K.81, F.126, W.276, W.316, D.458, S.459, Q.461, E.561, W.563, H.569, K.571, E.593, H.627, L.643, D.644, I.646, V.736 Ligands: CA.3 8 PLIP interactions: 8 interactions with chain A Water bridges: A:K.81, A:K.81, A:Y.1080, A:Y.1080, A:Y.49, A:S.459 Hydrogen bonds: A:Q.461, A:K.571, A:K.571, A:Y.49, A:D.458, A:D.458, A:S.459, A:Q.461 Hydrophobic interactions: A:I.646

1 x IOD: IODIDE ION(Non-functional Binders)

IOD.2: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP

1 x CA: CALCIUM ION(Non-covalent)

CA.3: 6 residues within 4Å: Chain A: D.458, S.459, E.538, E.561, E.593 Ligands: RAM-8OQ-GAL-ARA-RAM-8PK.1 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

2 x BR: BROMIDE ION(Non-covalent)

BR.4: 4 residues within 4Å: Chain A: R.701, R.793, P.794, M.795 Ligand excluded by PLIP BR.5: 5 residues within 4Å: Chain A: L.242, N.246, H.250, N.278, A.313 Ligand excluded by PLIP

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

Glycoside hydrolase family 2, sugar binding protein: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Glycoside hydrolase family 2, sugar binding protein