SMTL ID : 9j5a.1

ESTS1 phthalate ester degrading esterase from Sulfobacillus acidophilus in complex with p-nitrophenol

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.50 Å

Oligo State

monomer

Ligands

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

EDO.1: 7 residues within 4Å: Chain A: M.7, P.8, L.9, D.10, P.11, D.280, G.281 Ligand excluded by PLIP EDO.2: 7 residues within 4Å: Chain A: Q.171, R.172, P.230, W.231, S.237 Ligands: EDO.13, EDO.23 Ligand excluded by PLIP EDO.3: 7 residues within 4Å: Chain A: P.197, S.198, D.201, F.202, R.257, D.258 Ligands: EDO.16 Ligand excluded by PLIP EDO.4: 2 residues within 4Å: Chain A: M.7, D.280 Ligand excluded by PLIP EDO.5: 6 residues within 4Å: Chain A: T.63, A.132, I.135, D.136, R.172, E.176 Ligand excluded by PLIP EDO.6: 9 residues within 4Å: Chain A: E.56, D.57, G.58, I.69, R.71, I.115, W.140, W.148 Ligands: EDO.14 Ligand excluded by PLIP EDO.7: 7 residues within 4Å: Chain A: R.78, F.79, T.109, V.110, A.303, L.306, E.307 Ligand excluded by PLIP EDO.9: 6 residues within 4Å: Chain A: F.16, G.40, L.43, L.44, L.207, M.289 Ligand excluded by PLIP EDO.12: 4 residues within 4Å: Chain A: G.271, V.272, P.273, T.274 Ligand excluded by PLIP EDO.13: 3 residues within 4Å: Chain A: D.175 Ligands: EDO.2, EDO.23 Ligand excluded by PLIP EDO.14: 6 residues within 4Å: Chain A: G.58, T.59, V.60, I.69, W.140 Ligands: EDO.6 Ligand excluded by PLIP EDO.15: 3 residues within 4Å: Chain A: K.174, T.241, G.242 Ligand excluded by PLIP EDO.16: 4 residues within 4Å: Chain A: H.6, R.257, R.278 Ligands: EDO.3 Ligand excluded by PLIP EDO.17: 6 residues within 4Å: Chain A: G.94, D.95, D.118, Y.119, S.120, L.121 Ligand excluded by PLIP EDO.18: 5 residues within 4Å: Chain A: V.61, T.62, T.63, D.136, R.139 Ligand excluded by PLIP EDO.19: 4 residues within 4Å: Chain A: R.71, I.73, G.147, W.148 Ligand excluded by PLIP EDO.20: 5 residues within 4Å: Chain A: P.123, K.126, E.218, Q.219 Ligands: NPO.8 Ligand excluded by PLIP EDO.21: 5 residues within 4Å: Chain A: P.52, V.53, D.54, T.55, H.100 Ligand excluded by PLIP EDO.22: 4 residues within 4Å: Chain A: F.93, A.212, W.215, F.216 Ligand excluded by PLIP EDO.23: 7 residues within 4Å: Chain A: Q.171, S.237, D.239, L.240, L.243 Ligands: EDO.2, EDO.13 Ligand excluded by PLIP

2 x NPO: P-NITROPHENOL(Non-covalent)

NPO.8: 10 residues within 4Å: Chain A: K.126, Q.214, G.217, E.218, L.221, R.222, T.223, P.224, V.227 Ligands: EDO.20 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:L.221, A:P.224 Hydrogen bonds: A:E.218 Water bridges: A:Q.214 NPO.10: 14 residues within 4Å: Chain A: G.89, G.90, F.91, S.160, A.161, A.189, M.192, L.208, M.213, F.216, G.217, L.256, H.284 Ligands: ACE.11 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:F.91, A:A.161, A:M.213 Hydrogen bonds: A:S.160

1 x ACE: ACETYL GROUP(Non-functional Binders)

ACE.11: 8 residues within 4Å: Chain A: G.88, G.89, G.90, S.160, A.161, L.208, H.284 Ligands: NPO.10 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:G.89, A:G.90, A:A.161

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Verma, S. et al., Mechanistic and structural insights into EstS1 esterase: A potent broad-spectrum phthalate diester degrading enzyme. Structure (2025)

Release Date

2024-12-25

Peptides

Alpha/beta hydrolase fold-3 domain-containing protein: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Alpha/beta hydrolase fold-3 domain-containing protein

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