SMTL ID : 7cat.1

The NADPH binding site on beef liver catalase

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.50 Å

Oligo State

homo-tetramer

Ligands

4 x HEM: PROTOPORPHYRIN IX CONTAINING FE(Covalent)

HEM.1: 24 residues within 4Å: Chain A: R.71, V.72, V.73, H.74, R.111, G.130, V.145, G.146, N.147, A.157, F.160, S.216, H.217, L.298, F.333, M.349, R.353, A.356, Y.357, T.360, H.361, R.364 Chain B: M.60, D.64 25 PLIP interactions: 25 interactions with chain A, Hydrophobic interactions: A:V.72, A:V.73, A:H.74, A:V.145, A:N.147, A:A.157, A:F.160, A:F.160, A:F.160, A:L.298, A:R.353, A:A.356, A:Y.357, A:Y.357, A:T.360 Salt bridges: A:R.71, A:R.71, A:R.111, A:H.361, A:R.364 pi-Stacking: A:H.74, A:F.152, A:F.160 pi-Cation interactions: A:R.353 Metal complexes: A:Y.357 HEM.3: 24 residues within 4Å: Chain A: M.60, D.64 Chain B: R.71, V.72, V.73, H.74, R.111, G.130, V.145, G.146, N.147, A.157, F.160, S.216, H.217, L.298, F.333, M.349, R.353, A.356, Y.357, T.360, H.361, R.364 25 PLIP interactions: 25 interactions with chain B, Hydrophobic interactions: B:V.72, B:V.73, B:H.74, B:V.145, B:N.147, B:A.157, B:F.160, B:F.160, B:F.160, B:L.298, B:R.353, B:A.356, B:Y.357, B:Y.357, B:T.360 Salt bridges: B:R.71, B:R.71, B:R.111, B:H.361, B:R.364 pi-Stacking: B:H.74, B:F.152, B:F.160 pi-Cation interactions: B:R.353 Metal complexes: B:Y.357 HEM.5: 24 residues within 4Å: Chain C: R.71, V.72, V.73, H.74, R.111, G.130, V.145, G.146, N.147, A.157, F.160, S.216, H.217, L.298, F.333, M.349, R.353, A.356, Y.357, T.360, H.361, R.364 Chain D: M.60, D.64 25 PLIP interactions: 25 interactions with chain C, Hydrophobic interactions: C:V.72, C:V.73, C:H.74, C:V.145, C:N.147, C:A.157, C:F.160, C:F.160, C:F.160, C:L.298, C:R.353, C:A.356, C:Y.357, C:Y.357, C:T.360 Salt bridges: C:R.71, C:R.71, C:R.111, C:H.361, C:R.364 pi-Stacking: C:H.74, C:F.152, C:F.160 pi-Cation interactions: C:R.353 Metal complexes: C:Y.357 HEM.7: 24 residues within 4Å: Chain C: M.60, D.64 Chain D: R.71, V.72, V.73, H.74, R.111, G.130, V.145, G.146, N.147, A.157, F.160, S.216, H.217, L.298, F.333, M.349, R.353, A.356, Y.357, T.360, H.361, R.364 25 PLIP interactions: 25 interactions with chain D, Hydrophobic interactions: D:V.72, D:V.73, D:H.74, D:V.145, D:N.147, D:A.157, D:F.160, D:F.160, D:F.160, D:L.298, D:R.353, D:A.356, D:Y.357, D:Y.357, D:T.360 Salt bridges: D:R.71, D:R.71, D:R.111, D:H.361, D:R.364 pi-Stacking: D:H.74, D:F.152, D:F.160 pi-Cation interactions: D:R.353 Metal complexes: D:Y.357

4 x NDP: NADPH DIHYDRO-NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE(Non-covalent)

NDP.2: 16 residues within 4Å: Chain A: H.193, F.197, S.200, R.202, D.212, H.234, K.236, I.241, V.301, W.302, P.303, H.304, Q.441, T.444, F.445, V.449 17 PLIP interactions: 17 interactions with chain A Hydrophobic interactions: A:V.301 Hydrogen bonds: A:H.193, A:S.200, A:S.200, A:W.302, A:H.304, A:H.304, A:T.444, A:F.445 Water bridges: A:Y.214, A:Y.214 Salt bridges: A:R.202, A:K.236, A:H.304, A:H.304 pi-Stacking: A:F.445 pi-Cation interactions: A:R.202 NDP.4: 16 residues within 4Å: Chain B: H.193, F.197, S.200, R.202, D.212, H.234, K.236, I.241, V.301, W.302, P.303, H.304, Q.441, T.444, F.445, V.449 17 PLIP interactions: 17 interactions with chain B Hydrophobic interactions: B:V.301 Hydrogen bonds: B:H.193, B:S.200, B:S.200, B:W.302, B:H.304, B:H.304, B:T.444, B:F.445 Water bridges: B:Y.214, B:Y.214 Salt bridges: B:R.202, B:K.236, B:H.304, B:H.304 pi-Stacking: B:F.445 pi-Cation interactions: B:R.202 NDP.6: 16 residues within 4Å: Chain C: H.193, F.197, S.200, R.202, D.212, H.234, K.236, I.241, V.301, W.302, P.303, H.304, Q.441, T.444, F.445, V.449 17 PLIP interactions: 17 interactions with chain C Hydrophobic interactions: C:V.301 Hydrogen bonds: C:H.193, C:S.200, C:S.200, C:W.302, C:H.304, C:H.304, C:T.444, C:F.445 Water bridges: C:Y.214, C:H.304 Salt bridges: C:R.202, C:K.236, C:H.304, C:H.304 pi-Stacking: C:F.445 pi-Cation interactions: C:R.202 NDP.8: 16 residues within 4Å: Chain D: H.193, F.197, S.200, R.202, D.212, H.234, K.236, I.241, V.301, W.302, P.303, H.304, Q.441, T.444, F.445, V.449 17 PLIP interactions: 17 interactions with chain D Hydrophobic interactions: D:V.301 Hydrogen bonds: D:H.193, D:S.200, D:S.200, D:W.302, D:H.304, D:H.304, D:T.444, D:F.445 Water bridges: D:Y.214, D:H.304 Salt bridges: D:R.202, D:K.236, D:H.304, D:H.304 pi-Stacking: D:F.445 pi-Cation interactions: D:R.202

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Fita, I. et al., The NADPH binding site on beef liver catalase. Proc.Natl.Acad.Sci.USA (1985)

Release Date

1985-04-01

Peptides

CATALASE: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
A

D
B

CATALASE

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