SMTL ID : 2bcc.1

STIGMATELLIN-BOUND CYTOCHROME BC1 COMPLEX FROM CHICKEN

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 3.50 Å

Oligo State

hetero-1-1-1-1-1-1-1-1-1-1-mer

Ligands

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

HEM.1: 23 residues within 4Å: Chain C: L.42, Q.45, G.49, L.50, L.52, A.53, Y.56, R.81, H.84, A.85, A.88, L.124, T.127, A.128, G.131, Y.132, L.134, P.135, H.183, F.184, P.187, I.190, Y.274 18 PLIP interactions: 18 interactions with chain C, Hydrophobic interactions: C:L.42, C:Q.45, C:L.50, C:L.52, C:L.52, C:Y.56, C:A.88, C:L.124, C:L.134, C:F.184, C:P.187, C:I.190 Salt bridges: C:R.81, C:R.81 pi-Stacking: C:H.84, C:H.84 Metal complexes: C:H.84, C:H.183 HEM.2: 22 residues within 4Å: Chain C: W.32, F.34, G.35, L.38, A.39, I.95, H.98, I.99, R.101, S.107, Y.110, W.114, G.117, V.118, L.120, L.121, T.194, H.197, L.198, L.201, N.207 Ligands: U10.3 18 PLIP interactions: 18 interactions with chain C, Hydrophobic interactions: C:L.38, C:L.38, C:I.95, C:Y.110, C:W.114, C:W.114, C:L.120, C:L.121, C:L.198, C:L.201, C:L.201 Hydrogen bonds: C:W.32, C:N.207 Salt bridges: C:H.98, C:R.101, C:R.101 Metal complexes: C:H.98, C:H.197 HEM.7: 21 residues within 4Å: Chain D: V.36, C.37, S.39, C.40, H.41, N.105, A.108, L.109, P.110, P.111, L.113, I.116, R.120, Y.126, V.127, F.153, I.158, G.159, M.160, P.163, V.186 15 PLIP interactions: 15 interactions with chain D, Hydrophobic interactions: D:V.36, D:A.108, D:L.113, D:I.116, D:V.127, D:I.158, D:M.160, D:P.163, D:V.186 Hydrogen bonds: D:Y.126, D:G.159 Salt bridges: D:R.120 pi-Stacking: D:H.41, D:H.41 Metal complexes: D:H.41

1 x U10: UBIQUINONE-10(Non-covalent)

U10.3: 11 residues within 4Å: Chain C: I.15, S.18, L.22, A.39, L.198, L.201, H.202, S.206, F.221, D.229 Ligands: HEM.2 3 PLIP interactions: 3 interactions with chain C Hydrophobic interactions: C:I.15, C:A.39, C:F.221

2 x PEE: 1,2-dioleoyl-sn-glycero-3-phosphoethanolamine(Non-covalent)

PEE.4: 14 residues within 4Å: Chain C: W.31, F.96, L.97, R.101, Y.105, F.277, T.317, F.326, W.327, L.333, Y.359 Chain F: Y.29, N.69 Chain G: V.48 12 PLIP interactions: 11 interactions with chain C, 1 interactions with chain F Hydrophobic interactions: C:W.31, C:W.31, C:W.31, C:F.96, C:L.97, C:F.277, C:F.277, C:F.326, C:F.326, C:L.333 Hydrogen bonds: C:Y.105, F:N.69 PEE.9: 19 residues within 4Å: Chain A: F.442 Chain C: I.230, T.234 Chain D: L.215, V.219 Chain E: Y.37, T.40, T.44, V.47, K.52 Chain J: F.14, R.15, F.20, A.21, V.25, A.28, L.29, E.32 Ligands: BOG.6 15 PLIP interactions: 2 interactions with chain C, 6 interactions with chain J, 3 interactions with chain D, 4 interactions with chain E Hydrophobic interactions: C:I.230, C:T.234, J:F.20, J:A.21, J:V.25, J:A.28, J:L.29, D:L.215, D:V.219, E:V.47, E:V.47, E:K.52 Hydrogen bonds: J:F.14, E:T.40 Salt bridges: D:K.226

1 x SIG: STIGMATELLIN(Non-covalent)

SIG.5: 16 residues within 4Å: Chain C: M.125, F.129, V.130, M.139, G.143, V.146, I.147, F.151, L.182, I.269, P.271, E.272, F.275, A.278, Y.279, L.295 12 PLIP interactions: 12 interactions with chain C Hydrophobic interactions: C:M.125, C:F.129, C:V.130, C:V.146, C:I.147, C:F.151, C:L.182, C:P.271, C:F.275, C:F.275, C:A.278, C:L.295

1 x BOG: octyl beta-D-glucopyranoside(Non-covalent)

BOG.6: 11 residues within 4Å: Chain C: Y.76 Chain D: H.200, R.203, K.207, M.211 Chain E: Y.49, A.50, N.53, Q.57 Chain J: D.40 Ligands: PEE.9 8 PLIP interactions: 3 interactions with chain D, 1 interactions with chain J, 3 interactions with chain E, 1 interactions with chain C Hydrophobic interactions: D:M.211, E:Y.49, E:A.50 Hydrogen bonds: D:K.207, J:D.40, E:N.53, C:Y.76 Salt bridges: D:K.207

1 x FES: FE2/S2 (INORGANIC) CLUSTER(Non-covalent)

FES.8: 9 residues within 4Å: Chain E: C.139, H.141, L.142, C.144, C.158, C.160, H.161, G.162, S.163 4 PLIP interactions: 4 interactions with chain E, Metal complexes: E:C.139, E:H.141, E:C.158, E:H.161

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Zhang, Z. et al., Electron Transfer by Domain Movement in Cytochrome Bc1. Nature (1998)

Release Date

1999-08-02

Peptides

UBIQUINOL CYTOCHROME C OXIDOREDUCTASE: A
UBIQUINOL CYTOCHROME C OXIDOREDUCTASE: B
UBIQUINOL CYTOCHROME C OXIDOREDUCTASE: C
UBIQUINOL CYTOCHROME C OXIDOREDUCTASE: D
UBIQUINOL CYTOCHROME C OXIDOREDUCTASE: E
UBIQUINOL CYTOCHROME C OXIDOREDUCTASE: F
UBIQUINOL CYTOCHROME C OXIDOREDUCTASE: G
UBIQUINOL CYTOCHROME C OXIDOREDUCTASE: H
UBIQUINOL CYTOCHROME C OXIDOREDUCTASE: I
UBIQUINOL CYTOCHROME C OXIDOREDUCTASE: J

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

E
E

F
F

G
G

H
H

I
I

J
J

Membrane

We predict this structure to be a membrane protein.
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UBIQUINOL CYTOCHROME C OXIDOREDUCTASE

UBIQUINOL CYTOCHROME C OXIDOREDUCTASE

UBIQUINOL CYTOCHROME C OXIDOREDUCTASE

UBIQUINOL CYTOCHROME C OXIDOREDUCTASE

UBIQUINOL CYTOCHROME C OXIDOREDUCTASE

UBIQUINOL CYTOCHROME C OXIDOREDUCTASE

UBIQUINOL CYTOCHROME C OXIDOREDUCTASE

UBIQUINOL CYTOCHROME C OXIDOREDUCTASE

UBIQUINOL CYTOCHROME C OXIDOREDUCTASE

UBIQUINOL CYTOCHROME C OXIDOREDUCTASE

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