SMTL ID : 7z6b.1 (2 other biounits)

PET hydrolase PET6 from halophilic organsim Vibrio gazogenes

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.40 Å

Oligo State

monomer

Ligands

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

CL.1: 5 residues within 4Å: Chain A: D.207, A.208, V.209, S.238, H.239 Ligand excluded by PLIP

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

NA.2: 5 residues within 4Å: Chain A: D.280, S.282, L.283, V.285, S.286 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:D.280 NA.3: 6 residues within 4Å: Chain A: R.59, A.61, G.63, F.64, G.65, N.115 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:F.64, A:F.64

4 x PO4: PHOSPHATE ION(Non-functional Binders)

PO4.4: 5 residues within 4Å: Chain A: A.171, T.172, D.173, R.174, K.175 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:R.174 PO4.5: 1 residues within 4Å: Chain A: R.225 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:R.225 PO4.6: 2 residues within 4Å: Chain A: P.49, S.51 No protein-ligand interaction detected (PLIP) PO4.7: 2 residues within 4Å: Chain A: S.46, R.47 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:S.46 Water bridges: A:R.47 Salt bridges: A:R.47

7 x MPD: (4S)-2-METHYL-2,4-PENTANEDIOL(Non-functional Binders)

MPD.8: 11 residues within 4Å: Chain A: G.87, Y.88, V.89, S.90, W.160, S.161, V.209, H.239, F.240 Ligands: MPD.9, MPD.10 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:W.160, A:V.209, A:F.240 MPD.9: 11 residues within 4Å: Chain A: Y.88, Q.120, S.161, M.162, W.185, V.209, A.210, H.239 Ligands: MPD.8, MPD.10, MPD.12 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:Y.88, A:W.185, A:W.185, A:V.209 Water bridges: A:Q.120, A:Q.120 MPD.10: 6 residues within 4Å: Chain A: A.208, V.209 Ligands: MPD.8, MPD.9, MPD.11, MPD.12 No protein-ligand interaction detected (PLIP) MPD.11: 2 residues within 4Å: Ligands: MPD.10, MPD.12 No protein-ligand interaction detected (PLIP) MPD.12: 10 residues within 4Å: Chain A: W.185, L.187, V.209, A.210, P.211, V.214, H.215 Ligands: MPD.9, MPD.10, MPD.11 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:L.187 Hydrogen bonds: A:W.185, A:V.209, A:V.209, A:H.215 MPD.13: 4 residues within 4Å: Chain A: M.22, V.23, P.24, Q.78 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:M.22 Hydrogen bonds: A:M.22 MPD.14: 6 residues within 4Å: Chain A: Q.120, P.121, M.162, W.185, L.187, G.188 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:L.187 Water bridges: A:L.187

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Weigert, S. et al., Investigation of the halophilic PET hydrolase PET6 from Vibrio gazogenes. Protein Sci. (2022)

Release Date

2022-11-23

Peptides

Cutinase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Cutinase

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