SMTL ID : 7stt.1

Crystal structure of sulfatase from Pedobacter yulinensis

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.60 Å

Oligo State

homo-dimer

Ligands

2 x MLI: MALONATE ION(Non-functional Binders)

MLI.1: 5 residues within 4Å: Chain A: V.54, A.55, F.76, H.195, K.293 11 PLIP interactions: 11 interactions with chain A Hydrophobic interactions: A:F.76 Water bridges: A:Y.140, A:H.195, A:T.196, A:K.293 Salt bridges: A:K.111, A:H.113, A:H.195, A:H.195, A:K.293, A:K.293 MLI.7: 5 residues within 4Å: Chain B: V.54, A.55, F.76, H.195, K.293 12 PLIP interactions: 12 interactions with chain B Hydrophobic interactions: B:F.76 Water bridges: B:Y.140, B:H.195, B:H.195, B:K.293, B:K.293 Salt bridges: B:K.111, B:H.113, B:H.195, B:H.195, B:K.293, B:K.293

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

NA.2: 3 residues within 4Å: Chain A: D.145, F.147, P.149 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:D.145 NA.3: 4 residues within 4Å: Chain A: P.89, Y.92, V.93, E.97 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Y.92, A:T.94 NA.4: 2 residues within 4Å: Chain A: D.80, T.83 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:T.83 NA.8: 3 residues within 4Å: Chain B: D.145, F.147, P.149 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:P.149 NA.9: 4 residues within 4Å: Chain B: P.89, Y.92, V.93, E.97 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:P.89, B:T.94 NA.10: 2 residues within 4Å: Chain B: D.80, T.83 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:D.80, B:T.83

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

CL.5: 3 residues within 4Å: Chain A: N.377, R.378 Chain B: E.81 Ligand excluded by PLIP CL.11: 3 residues within 4Å: Chain A: E.81 Chain B: N.377, R.378 Ligand excluded by PLIP

2 x CA: CALCIUM ION(Non-covalent)

CA.6: 5 residues within 4Å: Chain A: D.15, D.16, A.55, D.276, N.277 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:D.15, A:D.16, A:D.276, A:D.276 CA.12: 5 residues within 4Å: Chain B: D.15, D.16, A.55, D.276, N.277 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:D.15, B:D.16, B:D.276, B:D.276

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Schlachter, C.R. et al., Purification, Characterization, and Structural Studies of a Sulfatase from Pedobacter yulinensis . Molecules (2021)

Release Date

2022-01-26

Peptides

N-acetylgalactosamine-6-sulfatase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

N-acetylgalactosamine-6-sulfatase

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