SMTL ID : 5cib.1

Complex of yeast cytochrome c peroxidase (W191G) bound to 2,4-dimethylaniline with iso-1 cytochrome c

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 3.01 Å

Oligo State

hetero-2-2-mer

Ligands

4 x HEC: HEME C(Non-covalent)

HEC.1: 20 residues within 4Å: Chain A: P.44, V.47, R.48, W.51, A.83, P.145, D.146, L.171, M.172, A.174, H.175, L.177, G.178, K.179, T.180, H.181, N.184, S.185, F.266 Ligands: 51S.2 19 PLIP interactions: 19 interactions with chain A, Hydrophobic interactions: A:V.47, A:R.48, A:W.51, A:W.51, A:W.51, A:P.145, A:L.171, A:L.171, A:A.174, A:F.266 Hydrogen bonds: A:A.83, A:K.179, A:H.181 Salt bridges: A:R.48, A:H.181, A:H.181 pi-Stacking: A:W.51 pi-Cation interactions: A:R.48 Metal complexes: A:H.175 HEC.3: 25 residues within 4Å: Chain A: A.193 Chain B: R.18, C.19, C.22, H.23, V.33, G.34, P.35, L.37, S.45, G.46, Y.51, Y.53, T.54, N.57, W.64, M.69, L.73, T.83, K.84, M.85, A.86, F.87, L.99, L.103 19 PLIP interactions: 18 interactions with chain B, 1 interactions with chain A, Hydrophobic interactions: B:R.18, B:L.37, B:W.64, B:L.73, B:M.85, B:F.87, B:F.87, B:L.99, B:L.103, A:A.193 Hydrogen bonds: B:R.43, B:G.46, B:Y.53, B:T.54, B:N.57, B:N.57, B:T.83, B:K.84 Metal complexes: B:H.23 HEC.4: 24 residues within 4Å: Chain C: P.44, V.45, V.47, R.48, W.51, A.83, P.145, D.146, A.147, L.171, M.172, A.174, H.175, L.177, G.178, K.179, T.180, H.181, N.184, S.185, L.232, T.234, F.266 Ligands: 51S.5 22 PLIP interactions: 22 interactions with chain C, Hydrophobic interactions: C:V.47, C:R.48, C:W.51, C:W.51, C:W.51, C:P.145, C:P.145, C:L.171, C:A.174, C:T.180, C:L.232, C:F.266 Hydrogen bonds: C:A.83, C:K.179, C:H.181, C:S.185 Salt bridges: C:R.48, C:H.181, C:H.181 pi-Stacking: C:W.51 pi-Cation interactions: C:R.48 Metal complexes: C:H.175 HEC.6: 28 residues within 4Å: Chain C: A.193 Chain D: R.18, C.19, Q.21, C.22, H.23, V.33, G.34, P.35, L.37, I.40, H.44, S.45, G.46, Q.47, Y.51, Y.53, T.54, N.57, W.64, Y.72, L.73, T.83, K.84, M.85, A.86, F.87, L.99 18 PLIP interactions: 17 interactions with chain D, 1 interactions with chain C, Hydrophobic interactions: D:Q.21, D:I.40, D:Y.51, D:Y.53, D:W.64, D:W.64, D:Y.72, D:L.73, D:F.87, D:F.87, D:L.99, C:A.193 Hydrogen bonds: D:Q.47, D:T.54, D:N.57, D:W.64, D:T.83 Metal complexes: D:H.23

2 x 51S: 2,4-dimethylaniline(Non-covalent)

51S.2: 11 residues within 4Å: Chain A: H.175, A.176, L.177, G.178, K.179, T.180, G.191, G.192, M.230, D.235 Ligands: HEC.1 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:T.180 51S.5: 12 residues within 4Å: Chain C: H.175, A.176, L.177, G.178, T.180, G.189, P.190, G.191, G.192, M.230, L.232 Ligands: HEC.4 2 PLIP interactions: 2 interactions with chain C Hydrophobic interactions: C:T.180, C:L.232

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Payne, T.M. et al., Constraints on the Radical Cation Center of Cytochrome c Peroxidase for Electron Transfer from Cytochrome c. Biochemistry (2016)

Release Date

2016-08-03

Peptides

Cytochrome c peroxidase, mitochondrial: AC
Cytochrome c iso-1: BD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

C
C

B
B

D
D

Cytochrome c peroxidase, mitochondrial

Cytochrome c iso-1

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