SMTL ID : 2p5q.2 (1 other biounit)

Crystal structure of the poplar glutathione peroxidase 5 in the reduced form

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.00 Å

Oligo State

homo-dimer

Ligands

16 x CD: CADMIUM ION(Non-covalent)

CD.1: 2 residues within 4Å: Chain A: E.22, D.103 Ligand excluded by PLIP CD.2: 3 residues within 4Å: Chain A: C.92 Ligands: CD.3, ACT.10 Ligand excluded by PLIP CD.3: 2 residues within 4Å: Chain A: C.92 Ligands: CD.2 Ligand excluded by PLIP CD.4: 2 residues within 4Å: Chain A: D.85, D.89 Ligand excluded by PLIP CD.5: 2 residues within 4Å: Chain A: D.148 Chain B: T.153 Ligand excluded by PLIP CD.6: 5 residues within 4Å: Chain A: C.44, G.45, E.79, W.133, N.134 Ligand excluded by PLIP CD.7: 2 residues within 4Å: Chain A: H.13, K.31 Ligand excluded by PLIP CD.8: 4 residues within 4Å: Chain A: E.59, K.62, E.98 Ligands: ACT.9 Ligand excluded by PLIP CD.11: 2 residues within 4Å: Chain B: E.22, D.103 Ligand excluded by PLIP CD.12: 4 residues within 4Å: Chain B: D.85, D.89 Ligands: CD.13, ACT.21 Ligand excluded by PLIP CD.13: 5 residues within 4Å: Chain B: K.21, D.85 Ligands: CD.12, ACT.19, ACT.21 Ligand excluded by PLIP CD.14: 2 residues within 4Å: Chain A: T.153 Chain B: D.148 Ligand excluded by PLIP CD.15: 2 residues within 4Å: Chain B: H.13, K.31 Ligand excluded by PLIP CD.16: 4 residues within 4Å: Chain B: C.44, G.45, E.79, W.133 Ligand excluded by PLIP CD.17: 2 residues within 4Å: Chain B: E.59, E.98 Ligand excluded by PLIP CD.18: 2 residues within 4Å: Chain B: K.60, E.160 Ligand excluded by PLIP

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

ACT.9: 4 residues within 4Å: Chain A: E.59, K.62, E.98 Ligands: CD.8 4 PLIP interactions: 4 interactions with chain A Water bridges: A:K.62, A:K.62, A:E.98 Salt bridges: A:K.62 ACT.10: 4 residues within 4Å: Chain A: K.96, S.97, E.98 Ligands: CD.2 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:E.98 ACT.19: 3 residues within 4Å: Chain B: K.21, D.85 Ligands: CD.13 2 PLIP interactions: 2 interactions with chain B Water bridges: B:K.21 Salt bridges: B:K.21 ACT.20: 3 residues within 4Å: Chain B: K.96, S.97, E.98 1 PLIP interactions: 1 interactions with chain B Hydrophobic interactions: B:E.98 ACT.21: 5 residues within 4Å: Chain B: K.21, D.85, D.89 Ligands: CD.12, CD.13 5 PLIP interactions: 5 interactions with chain B Water bridges: B:K.21, B:K.21, B:D.85, B:D.85 Salt bridges: B:K.21

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Koh, C.S. et al., Crystal Structures of a Poplar Thioredoxin Peroxidase that Exhibits the Structure of Glutathione Peroxidases: Insights into Redox-driven Conformational Changes. J.Mol.Biol. (2007)

Release Date

2007-07-24

Peptides

Glutathione peroxidase 5: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
C

B
D

Glutathione peroxidase 5

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