SMTL ID : 5h6b.2 (1 other biounit)

Crystal structure of a thermostable lipase from Marine Streptomyces

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.30 Å

Oligo State

homo-dimer

Ligands

8 x ZN: ZINC ION(Non-covalent)

ZN.1: 2 residues within 4Å: Chain A: D.44 Ligands: ACT.6 4 PLIP interactions: 2 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:D.44, A:D.44, H2O.2, H2O.2 ZN.2: 4 residues within 4Å: Chain A: N.41, D.64, H.75 Ligands: IMD.8 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:D.64, A:H.75 ZN.3: 4 residues within 4Å: Chain A: H.139, D.185 Ligands: ACT.5, IMD.7 4 PLIP interactions: 3 interactions with chain A, 1 Ligand-Ligand interactions Metal complexes: A:H.139, A:D.185, A:D.185, ACT.5 ZN.4: 3 residues within 4Å: Chain A: D.88, D.92, K.127 3 PLIP interactions: 2 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.88, A:D.92, H2O.1 ZN.9: 2 residues within 4Å: Chain B: D.44 Ligands: ACT.14 4 PLIP interactions: 2 interactions with chain B, 2 Ligand-Water interactions Metal complexes: B:D.44, B:D.44, H2O.4, H2O.4 ZN.10: 4 residues within 4Å: Chain B: N.41, D.64, H.75 Ligands: IMD.16 2 PLIP interactions: 2 interactions with chain B Metal complexes: B:D.64, B:H.75 ZN.11: 4 residues within 4Å: Chain B: H.139, D.185 Ligands: ACT.13, IMD.15 4 PLIP interactions: 3 interactions with chain B, 1 Ligand-Ligand interactions Metal complexes: B:H.139, B:D.185, B:D.185, ACT.13 ZN.12: 3 residues within 4Å: Chain B: D.88, D.92, K.127 3 PLIP interactions: 2 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:D.88, B:D.92, H2O.3

4 x ACT: ACETATE ION(Non-functional Binders)

ACT.5: 6 residues within 4Å: Chain A: H.139, T.181, G.183, D.185 Ligands: ZN.3, IMD.7 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:G.183 Salt bridges: A:H.139 ACT.6: 3 residues within 4Å: Chain A: D.44, F.73 Ligands: ZN.1 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:F.73 Hydrogen bonds: A:D.44 ACT.13: 6 residues within 4Å: Chain B: H.139, T.181, G.183, D.185 Ligands: ZN.11, IMD.15 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:G.183 Salt bridges: B:H.139 ACT.14: 3 residues within 4Å: Chain B: D.44, F.73 Ligands: ZN.9 2 PLIP interactions: 2 interactions with chain B Hydrophobic interactions: B:F.73 Hydrogen bonds: B:D.44

4 x IMD: IMIDAZOLE(Non-covalent)

IMD.7: 5 residues within 4Å: Chain A: H.139, D.185, D.212 Ligands: ZN.3, ACT.5 1 PLIP interactions: 1 interactions with chain A Water bridges: A:D.212 IMD.8: 7 residues within 4Å: Chain A: N.41, S.42, I.43, D.64, F.73, H.75 Ligands: ZN.2 No protein-ligand interaction detected (PLIP) IMD.15: 5 residues within 4Å: Chain B: H.139, D.185, D.212 Ligands: ZN.11, ACT.13 1 PLIP interactions: 1 interactions with chain B Water bridges: B:D.212 IMD.16: 7 residues within 4Å: Chain B: N.41, S.42, I.43, D.64, F.73, H.75 Ligands: ZN.10 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Zhao, Z. et al., Crystal structure of a lipase from Streptomyces sp. strain W007 - implications for thermostability and regiospecificity. FEBS J. (2017)

Release Date

2017-09-20

Peptides

Putative secreted lipase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

Putative secreted lipase

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