SMTL ID : 2x76.1

The crystal structure of PhaZ7 at atomic (1.2 Angstrom) resolution reveals details of the active site and suggests a substrate binding mode

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.45 Å

Oligo State

homo-dimer

Ligands

16 x IOD: IODIDE ION(Non-functional Binders)

IOD.1: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP IOD.2: 4 residues within 4Å: Chain A: G.20, G.34, S.35 Ligands: NA.16 Ligand excluded by PLIP IOD.3: 2 residues within 4Å: Chain A: R.228, A.230 Ligand excluded by PLIP IOD.4: 3 residues within 4Å: Chain A: A.23, P.24, G.25 Ligand excluded by PLIP IOD.5: 2 residues within 4Å: Chain A: V.26, G.27 Ligand excluded by PLIP IOD.6: 2 residues within 4Å: Chain A: A.340, A.341 Ligand excluded by PLIP IOD.7: 4 residues within 4Å: Chain A: C.3, G.4, T.5, N.6 Ligand excluded by PLIP IOD.8: 1 residues within 4Å: Chain A: D.329 Ligand excluded by PLIP IOD.18: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP IOD.19: 4 residues within 4Å: Chain B: G.20, G.34, S.35 Ligands: NA.33 Ligand excluded by PLIP IOD.20: 2 residues within 4Å: Chain B: R.228, A.230 Ligand excluded by PLIP IOD.21: 3 residues within 4Å: Chain B: A.23, P.24, G.25 Ligand excluded by PLIP IOD.22: 2 residues within 4Å: Chain B: V.26, G.27 Ligand excluded by PLIP IOD.23: 2 residues within 4Å: Chain B: A.340, A.341 Ligand excluded by PLIP IOD.24: 4 residues within 4Å: Chain B: C.3, G.4, T.5, N.6 Ligand excluded by PLIP IOD.25: 1 residues within 4Å: Chain B: D.329 Ligand excluded by PLIP

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

CL.9: 2 residues within 4Å: Chain A: Y.204, G.205 Ligand excluded by PLIP CL.10: 3 residues within 4Å: Chain A: A.101, G.290, M.291 Ligand excluded by PLIP CL.11: 3 residues within 4Å: Chain A: P.292, N.294, A.295 Ligand excluded by PLIP CL.12: 4 residues within 4Å: Chain A: N.62, G.65, Y.66, G.67 Ligand excluded by PLIP CL.13: 2 residues within 4Å: Chain A: N.83, D.84 Ligand excluded by PLIP CL.14: 3 residues within 4Å: Chain A: W.202, Y.204 Chain B: Y.189 Ligand excluded by PLIP CL.26: 2 residues within 4Å: Chain B: Y.204, G.205 Ligand excluded by PLIP CL.27: 3 residues within 4Å: Chain B: A.101, G.290, M.291 Ligand excluded by PLIP CL.28: 3 residues within 4Å: Chain B: P.292, N.294, A.295 Ligand excluded by PLIP CL.29: 4 residues within 4Å: Chain B: N.62, G.65, Y.66, G.67 Ligand excluded by PLIP CL.30: 2 residues within 4Å: Chain B: N.83, D.84 Ligand excluded by PLIP CL.31: 3 residues within 4Å: Chain A: Y.189 Chain B: W.202, Y.204 Ligand excluded by PLIP

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

NA.15: 4 residues within 4Å: Chain A: Y.173, Y.204, S.250, F.251 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Y.204, A:S.250 NA.16: 2 residues within 4Å: Chain A: G.20 Ligands: IOD.2 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:G.20 Water bridges: A:S.35 NA.32: 4 residues within 4Å: Chain B: Y.173, Y.204, S.250, F.251 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:S.250, B:S.250 NA.33: 2 residues within 4Å: Chain B: G.20 Ligands: IOD.19 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:G.20 Water bridges: B:S.35

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.17: 5 residues within 4Å: Chain A: T.37, A.38, T.125, G.126, K.127 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:A.38, A:G.126 GOL.34: 5 residues within 4Å: Chain B: T.37, A.38, T.125, G.126, K.127 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:A.38, B:G.126

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Wakadkar, S. et al., The structure of PhaZ7 at atomic (1.2 A) resolution reveals details of the active site and suggests a substrate-binding mode. Acta Crystallogr. Sect. F Struct. Biol. Cryst. Commun. (2010)

Release Date

2010-06-09

Peptides

PHB DEPOLYMERASE PHAZ7: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

PHB DEPOLYMERASE PHAZ7

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