SMTL ID : 3hb6.1

Inactive mutant H54F of Proteus mirabilis catalase

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.30 Å

Oligo State

homo-tetramer

Ligands

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

HEM.1: 26 residues within 4Å: Chain A: R.51, F.54, R.91, G.110, F.111, A.112, V.125, G.126, N.127, F.132, P.137, F.140, G.195, S.196, H.197, L.278, F.313, M.329, R.333, S.336, Y.337, A.340, H.341, R.344 Chain D: L.40, D.44 27 PLIP interactions: 26 interactions with chain A, 1 interactions with chain D, Hydrophobic interactions: A:F.54, A:F.54, A:F.54, A:V.125, A:N.127, A:F.132, A:P.137, A:F.140, A:F.140, A:F.140, A:F.140, A:L.278, A:R.333, A:Y.337, A:Y.337, D:L.40 Water bridges: A:A.112, A:A.311, A:R.344 Salt bridges: A:R.51, A:R.51, A:R.91, A:H.341, A:R.344 pi-Stacking: A:F.132 pi-Cation interactions: A:R.333 Metal complexes: A:Y.337 HEM.11: 26 residues within 4Å: Chain B: R.51, F.54, R.91, G.110, F.111, A.112, V.125, G.126, N.127, F.132, P.137, F.140, G.195, S.196, H.197, L.278, F.313, M.329, R.333, S.336, Y.337, A.340, H.341, R.344 Chain C: L.40, D.44 27 PLIP interactions: 26 interactions with chain B, 1 interactions with chain C, Hydrophobic interactions: B:F.54, B:F.54, B:F.54, B:V.125, B:N.127, B:F.132, B:P.137, B:F.140, B:F.140, B:F.140, B:F.140, B:L.278, B:R.333, B:Y.337, B:Y.337, C:L.40 Water bridges: B:A.112, B:A.311, B:R.344 Salt bridges: B:R.51, B:R.51, B:R.91, B:H.341, B:R.344 pi-Stacking: B:F.132 pi-Cation interactions: B:R.333 Metal complexes: B:Y.337 HEM.21: 26 residues within 4Å: Chain B: L.40, D.44 Chain C: R.51, F.54, R.91, G.110, F.111, A.112, V.125, G.126, N.127, F.132, P.137, F.140, G.195, S.196, H.197, L.278, F.313, M.329, R.333, S.336, Y.337, A.340, H.341, R.344 27 PLIP interactions: 26 interactions with chain C, 1 interactions with chain B, Hydrophobic interactions: C:F.54, C:F.54, C:F.54, C:V.125, C:N.127, C:F.132, C:P.137, C:F.140, C:F.140, C:F.140, C:F.140, C:L.278, C:R.333, C:Y.337, C:Y.337, B:L.40 Water bridges: C:A.112, C:A.311, C:R.344 Salt bridges: C:R.51, C:R.51, C:R.91, C:H.341, C:R.344 pi-Stacking: C:F.132 pi-Cation interactions: C:R.333 Metal complexes: C:Y.337 HEM.31: 26 residues within 4Å: Chain A: L.40, D.44 Chain D: R.51, F.54, R.91, G.110, F.111, A.112, V.125, G.126, N.127, F.132, P.137, F.140, G.195, S.196, H.197, L.278, F.313, M.329, R.333, S.336, Y.337, A.340, H.341, R.344 27 PLIP interactions: 26 interactions with chain D, 1 interactions with chain A, Hydrophobic interactions: D:F.54, D:F.54, D:F.54, D:V.125, D:N.127, D:F.132, D:P.137, D:F.140, D:F.140, D:F.140, D:F.140, D:L.278, D:R.333, D:Y.337, D:Y.337, A:L.40 Water bridges: D:A.112, D:A.311, D:R.344 Salt bridges: D:R.51, D:R.51, D:R.91, D:H.341, D:R.344 pi-Stacking: D:F.132 pi-Cation interactions: D:R.333 Metal complexes: D:Y.337

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

SO4.2: 3 residues within 4Å: Chain A: R.182, H.192, R.216 Ligand excluded by PLIP SO4.3: 3 residues within 4Å: Chain A: F.419, S.420, R.423 Ligand excluded by PLIP SO4.4: 4 residues within 4Å: Chain A: S.430, D.432, E.433, R.436 Ligand excluded by PLIP SO4.5: 4 residues within 4Å: Chain A: R.182, I.221, N.223, E.433 Ligand excluded by PLIP SO4.6: 3 residues within 4Å: Chain A: P.283, H.284, A.285 Ligand excluded by PLIP SO4.7: 3 residues within 4Å: Chain A: R.216, Q.218, Q.259 Ligand excluded by PLIP SO4.8: 2 residues within 4Å: Chain A: Q.447 Chain D: R.242 Ligand excluded by PLIP SO4.9: 7 residues within 4Å: Chain A: R.45 Chain B: R.45 Chain C: R.342, Y.343 Chain D: R.342, Y.343 Ligands: SO4.19 Ligand excluded by PLIP SO4.12: 3 residues within 4Å: Chain B: R.182, H.192, R.216 Ligand excluded by PLIP SO4.13: 3 residues within 4Å: Chain B: F.419, S.420, R.423 Ligand excluded by PLIP SO4.14: 4 residues within 4Å: Chain B: S.430, D.432, E.433, R.436 Ligand excluded by PLIP SO4.15: 4 residues within 4Å: Chain B: R.182, I.221, N.223, E.433 Ligand excluded by PLIP SO4.16: 3 residues within 4Å: Chain B: P.283, H.284, A.285 Ligand excluded by PLIP SO4.17: 3 residues within 4Å: Chain B: R.216, Q.218, Q.259 Ligand excluded by PLIP SO4.18: 2 residues within 4Å: Chain B: Q.447 Chain C: R.242 Ligand excluded by PLIP SO4.19: 7 residues within 4Å: Chain A: R.45 Chain B: R.45 Chain C: R.342, Y.343 Chain D: R.342, Y.343 Ligands: SO4.9 Ligand excluded by PLIP SO4.22: 3 residues within 4Å: Chain C: R.182, H.192, R.216 Ligand excluded by PLIP SO4.23: 3 residues within 4Å: Chain C: F.419, S.420, R.423 Ligand excluded by PLIP SO4.24: 4 residues within 4Å: Chain C: S.430, D.432, E.433, R.436 Ligand excluded by PLIP SO4.25: 4 residues within 4Å: Chain C: R.182, I.221, N.223, E.433 Ligand excluded by PLIP SO4.26: 3 residues within 4Å: Chain C: P.283, H.284, A.285 Ligand excluded by PLIP SO4.27: 3 residues within 4Å: Chain C: R.216, Q.218, Q.259 Ligand excluded by PLIP SO4.28: 2 residues within 4Å: Chain B: R.242 Chain C: Q.447 Ligand excluded by PLIP SO4.29: 7 residues within 4Å: Chain A: R.342, Y.343 Chain B: R.342, Y.343 Chain C: R.45 Chain D: R.45 Ligands: SO4.39 Ligand excluded by PLIP SO4.32: 3 residues within 4Å: Chain D: R.182, H.192, R.216 Ligand excluded by PLIP SO4.33: 3 residues within 4Å: Chain D: F.419, S.420, R.423 Ligand excluded by PLIP SO4.34: 4 residues within 4Å: Chain D: S.430, D.432, E.433, R.436 Ligand excluded by PLIP SO4.35: 4 residues within 4Å: Chain D: R.182, I.221, N.223, E.433 Ligand excluded by PLIP SO4.36: 3 residues within 4Å: Chain D: P.283, H.284, A.285 Ligand excluded by PLIP SO4.37: 3 residues within 4Å: Chain D: R.216, Q.218, Q.259 Ligand excluded by PLIP SO4.38: 2 residues within 4Å: Chain A: R.242 Chain D: Q.447 Ligand excluded by PLIP SO4.39: 7 residues within 4Å: Chain A: R.342, Y.343 Chain B: R.342, Y.343 Chain C: R.45 Chain D: R.45 Ligands: SO4.29 Ligand excluded by PLIP

4 x GOL: GLYCEROL(Non-functional Binders)

GOL.10: 5 residues within 4Å: Chain A: R.342, H.349 Chain C: A.9, E.38, H.42 7 PLIP interactions: 6 interactions with chain C, 1 interactions with chain A Hydrogen bonds: C:E.38, A:R.342 Water bridges: C:A.9, C:E.38, C:E.38, C:E.38, C:E.38 GOL.20: 5 residues within 4Å: Chain B: R.342, H.349 Chain D: A.9, E.38, H.42 7 PLIP interactions: 6 interactions with chain D, 1 interactions with chain B Hydrogen bonds: D:E.38, B:R.342 Water bridges: D:A.9, D:E.38, D:E.38, D:E.38, D:E.38 GOL.30: 5 residues within 4Å: Chain A: A.9, E.38, H.42 Chain C: R.342, H.349 6 PLIP interactions: 1 interactions with chain C, 5 interactions with chain A Hydrogen bonds: C:R.342 Water bridges: A:A.9, A:E.38, A:E.38, A:E.38, A:E.38 GOL.40: 5 residues within 4Å: Chain B: A.9, E.38, H.42 Chain D: R.342, H.349 6 PLIP interactions: 5 interactions with chain B, 1 interactions with chain D Water bridges: B:A.9, B:E.38, B:E.38, B:E.38, B:E.38 Hydrogen bonds: D:R.342

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Andreoletti, P. et al., Verdoheme formation in Proteus mirabilis catalase. Biochim.Biophys.Acta (2009)

Release Date

2009-05-12

Peptides

Catalase: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

C
A

D
A

Catalase