SMTL ID : 2j2m.1

Crystal Structure Analysis of Catalase from Exiguobacterium oxidotolerans

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.40 Å

Oligo State

homo-tetramer

Ligands

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

HEM.1: 26 residues within 4Å: Chain A: R.53, V.54, V.55, H.56, R.93, G.112, F.113, S.114, V.127, G.128, N.129, F.134, F.142, V.198, H.199, F.315, L.331, G.334, R.335, S.338, Y.339, T.342, Q.343, R.346 Chain B: I.42, D.46 29 PLIP interactions: 28 interactions with chain A, 1 interactions with chain B, Hydrophobic interactions: A:V.54, A:H.56, A:V.127, A:F.134, A:F.142, A:F.142, A:F.142, A:F.142, A:V.198, A:L.331, A:L.331, A:R.335, A:Y.339, A:Y.339, B:I.42 Hydrogen bonds: A:S.114, A:S.114, A:Q.343 Water bridges: A:V.54, A:V.313, A:R.346 Salt bridges: A:R.53, A:R.53, A:R.93, A:R.346 pi-Stacking: A:H.56, A:F.142 pi-Cation interactions: A:R.335 Metal complexes: A:Y.339 HEM.2: 25 residues within 4Å: Chain A: D.46 Chain B: R.53, V.54, V.55, H.56, R.93, G.112, F.113, S.114, V.127, G.128, N.129, F.134, F.142, V.198, H.199, F.315, L.331, G.334, R.335, S.338, Y.339, T.342, Q.343, R.346 27 PLIP interactions: 27 interactions with chain B, Hydrophobic interactions: B:V.54, B:H.56, B:V.127, B:N.129, B:F.134, B:F.142, B:F.142, B:F.142, B:F.142, B:V.198, B:L.331, B:L.331, B:R.335, B:Y.339 Hydrogen bonds: B:S.114, B:S.114, B:Q.343 Water bridges: B:F.315, B:R.346 Salt bridges: B:R.53, B:R.53, B:R.93, B:R.346 pi-Stacking: B:H.56, B:F.142 pi-Cation interactions: B:R.335 Metal complexes: B:Y.339 HEM.3: 27 residues within 4Å: Chain C: R.53, V.54, V.55, H.56, R.93, S.95, G.112, F.113, S.114, V.127, G.128, N.129, F.134, A.139, F.142, V.198, H.199, F.315, L.331, R.335, S.338, Y.339, T.342, Q.343, R.346 Chain D: I.42, D.46 31 PLIP interactions: 30 interactions with chain C, 1 interactions with chain D, Hydrophobic interactions: C:V.54, C:V.55, C:H.56, C:V.127, C:F.134, C:A.139, C:F.142, C:F.142, C:F.142, C:F.142, C:F.142, C:V.198, C:F.315, C:L.331, C:L.331, C:R.335, C:Y.339, C:Y.339, C:T.342, D:I.42 Hydrogen bonds: C:S.114, C:S.114, C:Q.343 Salt bridges: C:R.53, C:R.53, C:R.93, C:R.346 pi-Stacking: C:H.56, C:F.142 pi-Cation interactions: C:R.335 Metal complexes: C:Y.339 HEM.4: 26 residues within 4Å: Chain C: I.42, D.46 Chain D: R.53, V.54, V.55, H.56, R.93, G.112, F.113, S.114, V.127, G.128, N.129, F.134, F.142, V.198, H.199, F.315, L.331, G.334, R.335, S.338, Y.339, T.342, Q.343, R.346 31 PLIP interactions: 30 interactions with chain D, 1 interactions with chain C, Hydrophobic interactions: D:V.54, D:H.56, D:V.127, D:N.129, D:F.134, D:F.142, D:F.142, D:F.142, D:F.142, D:V.198, D:L.331, D:L.331, D:R.335, D:Y.339, D:Y.339, D:T.342, C:I.42 Hydrogen bonds: D:S.114, D:S.114, D:Q.343 Water bridges: D:V.54, D:V.313, D:F.315 Salt bridges: D:R.53, D:R.53, D:R.93, D:R.346 pi-Stacking: D:H.56, D:F.142 pi-Cation interactions: D:R.335 Metal complexes: D:Y.339

Links

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Citation

Hara, I. et al., Relationship between the Size of the Bottleneck 15 a from Iron in the Main Channel and the Reactivity of Catalase Corresponding to the Molecular Size of Substrates. Biochemistry (2007)

Release Date

2007-01-16

Peptides

CATALASE: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

CATALASE