SMTL ID : 9bav.1

Structure of S1_15B, a lambda-carrageenan specific sulfatase, in complex with a carrageenoligosaccharide

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.49 Å

Oligo State

homo-dimer

Ligands

1 x 01- 02- 03: 6-O-sulfo-alpha-D-galactopyranose-(1-3)-2-O-sulfo-beta-D-galactopyranose-(1-4)-2,6-di-O-sulfo-alpha-D-galactopyranose

01-02-03.1: 24 residues within 4Å: Chain B: D.41, D.42, S.81, I.101, K.133, H.135, T.169, D.171, R.172, D.218, Q.220, H.221, H.278, V.279, N.331, D.337, K.360, Y.361, V.457, W.459, K.463, K.464 Ligands: 03.7, CA.8 14 PLIP interactions: 14 interactions with chain B Hydrogen bonds: B:Q.220, B:K.463, B:K.463, B:R.172, B:D.218, B:K.464, B:S.81, B:S.81, B:S.81, B:D.171, B:R.172, B:R.172, B:Q.220, B:N.331, B:D.337, B:K.464 Salt bridges: B:K.463, B:K.463, B:K.463, B:K.464, B:K.133, B:H.135, B:H.278, B:K.360

1 x G6S: 6-O-sulfo-beta-D-galactopyranose(Non-covalent)

G6S.2: 19 residues within 4Å: Chain A: D.41, D.42, T.80, S.81, I.101, K.133, H.135, T.169, D.171, R.172, Q.220, H.221, H.278, V.279, D.337, K.360, Y.361, K.464 Ligands: CA.3 16 PLIP interactions: 16 interactions with chain A Hydrogen bonds: A:S.81, A:S.81, A:D.171, A:R.172, A:R.172, A:Q.220, A:Q.220, A:D.337, A:Y.361, A:K.464 Salt bridges: A:K.133, A:H.135, A:R.172, A:H.278, A:K.360, A:K.464

2 x CA: CALCIUM ION(Non-covalent)

CA.3: 6 residues within 4Å: Chain A: D.41, D.42, S.81, D.330, N.331 Ligands: G6S.2 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:D.41, A:D.42, A:D.330, A:D.330 CA.8: 5 residues within 4Å: Chain B: D.41, D.42, D.330, N.331 Ligands: 01-02-03.1 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:D.41, B:D.42, B:D.330, B:D.330

1 x SO4: SULFATE ION(Non-functional Binders)

SO4.4: 3 residues within 4Å: Chain A: I.101, P.437, W.459 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:I.101

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

CL.5: 1 residues within 4Å: Chain A: K.188 Ligand excluded by PLIP CL.6: 1 residues within 4Å: Chain A: N.488 Ligand excluded by PLIP CL.11: 2 residues within 4Å: Chain B: N.292, R.346 Ligand excluded by PLIP

1 x 03: 6-O-sulfo-alpha-D-galactopyranose

03.7: 10 residues within 4Å: Chain B: R.100, I.101, Q.220, Y.361, P.437, W.459, K.464 Ligands: 01-02-03.1, 01-02-03.1, 01-02-03.1 7 PLIP interactions: 7 interactions with chain B Hydrogen bonds: B:I.101, B:R.172, B:Q.220, B:K.464, B:K.464 Water bridges: B:T.80, B:T.80

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

EDO.9: 2 residues within 4Å: Chain B: K.257, K.313 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:K.257, B:K.313 EDO.10: 2 residues within 4Å: Chain B: S.471, N.488 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:S.471, B:S.471, B:N.488

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Hettle, J.A. et al., Structure of S1_15B, a lambda-carrageenan specific sulfatase, in complex with a carrageenoligosaccharide. To Be Published

Release Date

2025-08-27

Peptides

S1_15B sulfatase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

S1_15B sulfatase

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