SMTL ID : 5k91.1 (1 other biounit)

Crystal structure of dimeric chlorite dismutase from Cyanothece sp. PCC7425 in complex with fluoride

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.18 Å

Oligo State

homo-dimer

Ligands

2 x HEM: PROTOPORPHYRIN IX CONTAINING FE(Non-covalent)

HEM.1: 30 residues within 4Å: Chain A: I.65, R.66, Y.67, A.68, L.76, I.94, I.96, K.98, W.102, F.114, H.120, T.121, G.124, L.125, Y.127, L.128, V.131, R.133, L.135, F.147, T.149, F.151, F.161, L.164, L.165, M.168, E.173, W.174, E.180 Ligands: F.2 23 PLIP interactions: 23 interactions with chain A, Hydrophobic interactions: A:I.65, A:L.76, A:L.76, A:F.114, A:F.114, A:L.128, A:V.131, A:L.135, A:L.135, A:F.147, A:F.147, A:F.151, A:F.151, A:W.174, A:W.174 Hydrogen bonds: A:R.66, A:Y.67, A:A.68, A:W.102 Water bridges: A:Y.67, A:Y.67 Salt bridges: A:K.98 Metal complexes: A:H.120 HEM.5: 31 residues within 4Å: Chain B: I.65, R.66, Y.67, A.68, L.76, I.94, I.96, K.98, W.102, F.114, H.120, T.121, G.124, L.125, Y.127, L.128, V.131, R.133, L.135, F.147, T.149, F.151, F.161, L.164, L.165, M.168, R.169, E.173, W.174, E.180 Ligands: F.6 22 PLIP interactions: 22 interactions with chain B, Hydrophobic interactions: B:L.76, B:L.76, B:F.114, B:L.128, B:V.131, B:L.135, B:L.135, B:F.147, B:F.147, B:F.151, B:F.151, B:L.164, B:W.174, B:W.174 Hydrogen bonds: B:R.66, B:Y.67, B:A.68, B:W.102 Water bridges: B:Y.67, B:Y.67 Salt bridges: B:K.98 Metal complexes: B:H.120

2 x F: FLUORIDE ION(Non-covalent)

F.2: 4 residues within 4Å: Chain A: R.133, L.135, F.151 Ligands: HEM.1 No protein-ligand interaction detected (PLIP) F.6: 4 residues within 4Å: Chain B: R.133, L.135, F.151 Ligands: HEM.5 No protein-ligand interaction detected (PLIP)

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.3: 8 residues within 4Å: Chain A: Y.11, F.13, W.21, I.42, L.83, R.134, W.150, E.152 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:R.134, A:R.134 Water bridges: A:W.21, A:W.21 GOL.7: 8 residues within 4Å: Chain B: Y.11, F.13, W.21, I.42, L.83, R.134, W.150, E.152 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:R.134, B:R.134 Water bridges: B:W.21, B:W.21

1 x SO4: SULFATE ION(Non-functional Binders)

SO4.4: 5 residues within 4Å: Chain A: R.10, L.141 Chain B: R.10, Q.59, L.141 6 PLIP interactions: 4 interactions with chain A, 2 interactions with chain B Water bridges: A:R.10, A:R.10, A:R.10, B:R.10 Salt bridges: A:R.10, B:R.10

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Schaffner, I. et al., Molecular Mechanism of Enzymatic Chlorite Detoxification: Insights from Structural and Kinetic Studies. ACS Catal (2017)

Release Date

2017-06-21

Peptides

Chlorite dismutase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Chlorite dismutase

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