SMTL ID : 1hbz.1

Catalase from Micrococcus lysodeikticu

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.50 Å

Oligo State

homo-tetramer

Ligands

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

HEM.1: 28 residues within 4Å: Chain A: R.53, R.54, P.55, H.56, R.92, G.111, F.112, A.113, V.126, G.127, N.128, F.133, P.138, F.141, G.196, S.197, H.198, L.279, F.314, M.330, R.334, A.337, Y.338, A.341, Q.342, R.345 Chain D: H.42, N.46 31 PLIP interactions: 30 interactions with chain A, 1 Ligand-Water interactions Hydrophobic interactions: A:H.56, A:A.113, A:V.126, A:N.128, A:F.133, A:P.138, A:F.141, A:F.141, A:F.141, A:F.141, A:L.279, A:R.334, A:A.337, A:Y.338, A:Y.338, A:A.341 Hydrogen bonds: A:Q.342 Water bridges: A:R.53, A:R.92, A:A.113, A:A.312 Salt bridges: A:R.53, A:R.53, A:R.92, A:R.345 pi-Stacking: A:H.56, A:F.133, A:F.141 pi-Cation interactions: A:R.334 Metal complexes: A:Y.338, H2O.21 HEM.3: 28 residues within 4Å: Chain B: R.53, R.54, P.55, H.56, R.92, G.111, F.112, A.113, V.126, G.127, N.128, F.133, P.138, F.141, G.196, S.197, H.198, L.279, F.314, M.330, R.334, A.337, Y.338, A.341, Q.342, R.345 Chain C: H.42, N.46 31 PLIP interactions: 30 interactions with chain B, 1 Ligand-Water interactions Hydrophobic interactions: B:H.56, B:A.113, B:V.126, B:N.128, B:F.133, B:P.138, B:F.141, B:F.141, B:F.141, B:F.141, B:L.279, B:R.334, B:A.337, B:Y.338, B:Y.338, B:A.341 Hydrogen bonds: B:Q.342 Water bridges: B:R.53, B:R.92, B:A.113, B:A.312 Salt bridges: B:R.53, B:R.53, B:R.92, B:R.345 pi-Stacking: B:H.56, B:F.133, B:F.141 pi-Cation interactions: B:R.334 Metal complexes: B:Y.338, H2O.42 HEM.5: 28 residues within 4Å: Chain B: H.42, N.46 Chain C: R.53, R.54, P.55, H.56, R.92, G.111, F.112, A.113, V.126, G.127, N.128, F.133, P.138, F.141, G.196, S.197, H.198, L.279, F.314, M.330, R.334, A.337, Y.338, A.341, Q.342, R.345 31 PLIP interactions: 30 interactions with chain C, 1 Ligand-Water interactions Hydrophobic interactions: C:H.56, C:A.113, C:V.126, C:N.128, C:F.133, C:P.138, C:F.141, C:F.141, C:F.141, C:F.141, C:L.279, C:R.334, C:A.337, C:Y.338, C:Y.338, C:A.341 Hydrogen bonds: C:Q.342 Water bridges: C:R.53, C:R.92, C:A.113, C:A.312 Salt bridges: C:R.53, C:R.53, C:R.92, C:R.345 pi-Stacking: C:H.56, C:F.133, C:F.141 pi-Cation interactions: C:R.334 Metal complexes: C:Y.338, H2O.62 HEM.7: 28 residues within 4Å: Chain A: H.42, N.46 Chain D: R.53, R.54, P.55, H.56, R.92, G.111, F.112, A.113, V.126, G.127, N.128, F.133, P.138, F.141, G.196, S.197, H.198, L.279, F.314, M.330, R.334, A.337, Y.338, A.341, Q.342, R.345 31 PLIP interactions: 30 interactions with chain D, 1 Ligand-Water interactions Hydrophobic interactions: D:H.56, D:A.113, D:V.126, D:N.128, D:F.133, D:P.138, D:F.141, D:F.141, D:F.141, D:F.141, D:L.279, D:R.334, D:A.337, D:Y.338, D:Y.338, D:A.341 Hydrogen bonds: D:Q.342 Water bridges: D:R.53, D:R.92, D:A.113, D:A.312 Salt bridges: D:R.53, D:R.53, D:R.92, D:R.345 pi-Stacking: D:H.56, D:F.133, D:F.141 pi-Cation interactions: D:R.334 Metal complexes: D:Y.338, H2O.83

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

SO4.2: 4 residues within 4Å: Chain A: R.183, N.193, Y.195, R.290 8 PLIP interactions: 8 interactions with chain A Hydrogen bonds: A:N.193, A:Y.195, A:Y.195 Water bridges: A:R.183, A:R.183, A:R.290 Salt bridges: A:R.183, A:R.290 SO4.4: 4 residues within 4Å: Chain B: R.183, N.193, Y.195, R.290 8 PLIP interactions: 8 interactions with chain B Hydrogen bonds: B:N.193, B:Y.195, B:Y.195 Water bridges: B:R.183, B:R.183, B:R.290 Salt bridges: B:R.183, B:R.290 SO4.6: 4 residues within 4Å: Chain C: R.183, N.193, Y.195, R.290 7 PLIP interactions: 7 interactions with chain C Hydrogen bonds: C:N.193, C:Y.195 Water bridges: C:R.183, C:R.183, C:R.290 Salt bridges: C:R.183, C:R.290 SO4.8: 4 residues within 4Å: Chain D: R.183, N.193, Y.195, R.290 7 PLIP interactions: 7 interactions with chain D Hydrogen bonds: D:N.193, D:Y.195 Water bridges: D:R.183, D:R.183, D:R.290 Salt bridges: D:R.183, D:R.290

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Murshudov, G.N. et al., Three-Dimensional Structure of Catalase from Micrococcus Lysodeikticus at 1.5A Resolution. FEBS Lett. (1992)

Release Date

2001-05-24

Peptides

CATALASE: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

C
A

D
A

CATALASE