SMTL ID : 7snj.1

Structure of Bacple_01701, a 6-O-galactose porphyran sulfatase

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.74 Å

Oligo State

monomer

Ligands

3 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.1: 4 residues within 4Å: Chain A: L.256, F.259, V.472, P.473 No protein-ligand interaction detected (PLIP) EDO.2: 6 residues within 4Å: Chain A: D.105, E.106, H.451, Y.452, D.453, R.456 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:E.106, A:R.456 EDO.3: 4 residues within 4Å: Chain A: D.416, A.417, T.439, K.509 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:K.509

1 x P4G: 1-ETHOXY-2-(2-ETHOXYETHOXY)ETHANE(Non-covalent)

P4G.4: 10 residues within 4Å: Chain A: T.62, E.65, L.66, D.69, L.310, K.311, F.314, D.315, K.318, W.323 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:F.314, A:K.318 Hydrogen bonds: A:D.69, A:K.318

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

PG4.5: 7 residues within 4Å: Chain A: Y.143, I.176, K.177, K.178, N.188, L.189, D.192 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:K.178, A:K.178, A:K.178 Water bridges: A:N.188

2 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)

PEG.6: 8 residues within 4Å: Chain A: P.138, S.139, H.140, F.141, D.142, Y.143, Y.144, S.164 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:F.141 PEG.7: 7 residues within 4Å: Chain A: H.120, G.123, Y.124, Q.125, D.142, D.199, K.202 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:D.199, A:K.202, A:K.202, A:K.202

1 x CIT: CITRIC ACID(Non-functional Binders)

CIT.8: 11 residues within 4Å: Chain A: I.82, S.83, L.104, H.214, D.215, R.271, D.345, K.346, R.347, H.428, H.429 17 PLIP interactions: 17 interactions with chain A Hydrophobic interactions: A:L.104 Hydrogen bonds: A:S.83, A:S.83, A:D.345, A:K.346, A:R.347 Water bridges: A:D.215, A:R.271 Salt bridges: A:H.133, A:H.214, A:H.214, A:R.271, A:K.346, A:K.346, A:R.347, A:H.428, A:H.429

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

NA.9: 5 residues within 4Å: Chain A: D.40, D.41, S.83, D.333, Q.334 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:D.41, A:D.333, A:Q.334

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Mathieu, S. et al., The porphyran degradation system of the human gut microbiota is complete, phylogenetically diverse and geographically structured across Asian populations. Biorxiv (2023)

Release Date

2022-10-05

Peptides

Arylsulfatase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Arylsulfatase