- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.74 Å
- Oligo State
- hetero-1-1-1-1-mer
- Ligands
- 2 x K: POTASSIUM ION(Non-covalent)
- 1 x AZI: AZIDE ION(Non-covalent)
- 1 x FAD: FLAVIN-ADENINE DINUCLEOTIDE(Covalent)
FAD.3: 39 residues within 4Å:- Chain A: V.24, G.25, A.26, G.27, G.28, A.29, V.47, T.48, K.49, L.50, S.55, H.56, T.57, A.59, A.60, Q.61, G.62, G.63, Y.176, F.177, A.178, A.212, T.213, G.214, T.224, D.232, L.263, H.364, Y.365, G.396, E.397, R.408, A.411, N.412, S.413, L.414, L.417
- Chain B: E.67
- Ligands: TEO.4
34 PLIP interactions:34 interactions with chain A- Hydrophobic interactions: A:A.59, A:L.263, A:L.263
- Hydrogen bonds: A:A.26, A:A.26, A:A.29, A:T.48, A:K.49, A:K.49, A:L.50, A:H.56, A:T.57, A:T.57, A:Q.61, A:G.63, A:G.63, A:A.178, A:A.178, A:G.214, A:E.397, A:E.397, A:R.408, A:R.408, A:A.411, A:S.413, A:S.413, A:L.414
- Water bridges: A:G.27, A:G.27, A:G.215, A:E.397, A:E.397, A:A.398
- pi-Cation interactions: A:H.364
- 1 x TEO: MALATE LIKE INTERMEDIATE(Non-covalent)
TEO.4: 13 residues within 4Å:- Chain A: Q.61, G.62, F.130, H.253, L.263, T.265, E.266, R.297, H.364, R.408, G.410, A.411
- Ligands: FAD.3
12 PLIP interactions:12 interactions with chain A- Hydrophobic interactions: A:F.130
- Hydrogen bonds: A:G.62, A:H.253, A:T.265, A:E.266, A:R.297, A:A.411
- Salt bridges: A:H.253, A:R.297, A:R.297, A:H.364, A:R.408
- 34 x UNL: UNKNOWN LIGAND(Non-functional Binders)
UNL.5: 2 residues within 4Å:- Chain A: S.591, K.593
Ligand excluded by PLIPUNL.6: 2 residues within 4Å:- Chain A: A.504
- Ligands: UNL.8
Ligand excluded by PLIPUNL.7: 1 residues within 4Å:- Ligands: UNL.8
Ligand excluded by PLIPUNL.8: 4 residues within 4Å:- Chain A: R.501, A.504
- Ligands: UNL.6, UNL.7
Ligand excluded by PLIPUNL.9: 2 residues within 4Å:- Chain A: N.471, I.499
Ligand excluded by PLIPUNL.10: 1 residues within 4Å:- Chain A: A.240
Ligand excluded by PLIPUNL.11: 0 residues within 4Å:- (No contacts)
Ligand excluded by PLIPUNL.12: 2 residues within 4Å:- Chain A: G.241, T.380
Ligand excluded by PLIPUNL.13: 5 residues within 4Å:- Chain A: Y.12, P.13, V.14, T.200, I.201
Ligand excluded by PLIPUNL.14: 2 residues within 4Å:- Chain A: Q.331, A.334
Ligand excluded by PLIPUNL.19: 4 residues within 4Å:- Chain B: W.173
- Chain D: Y.58
- Ligands: UNL.20, UNL.26
Ligand excluded by PLIPUNL.20: 5 residues within 4Å:- Chain B: I.218
- Chain D: Y.58
- Ligands: UNL.19, UNL.21, UNL.26
Ligand excluded by PLIPUNL.21: 3 residues within 4Å:- Chain B: H.216, I.218
- Ligands: UNL.20
Ligand excluded by PLIPUNL.22: 3 residues within 4Å:- Chain B: K.39, K.50, E.54
Ligand excluded by PLIPUNL.26: 5 residues within 4Å:- Chain B: P.169
- Chain C: I.40
- Ligands: UNL.19, UNL.20, UNL.27
Ligand excluded by PLIPUNL.27: 3 residues within 4Å:- Chain B: P.169
- Chain C: I.40
- Ligands: UNL.26
Ligand excluded by PLIPUNL.28: 3 residues within 4Å:- Chain C: L.91, L.95
- Ligands: UNL.40
Ligand excluded by PLIPUNL.29: 4 residues within 4Å:- Chain C: F.56
- Chain D: V.97
- Ligands: UNL.31, UNL.40
Ligand excluded by PLIPUNL.30: 1 residues within 4Å:- Chain C: S.96
Ligand excluded by PLIPUNL.31: 2 residues within 4Å:- Chain C: F.56
- Ligands: UNL.29
Ligand excluded by PLIPUNL.32: 5 residues within 4Å:- Chain C: S.50, S.54
- Chain D: L.43, G.47
- Ligands: UNL.43
Ligand excluded by PLIPUNL.33: 2 residues within 4Å:- Chain C: T.41
- Ligands: UNL.36
Ligand excluded by PLIPUNL.34: 2 residues within 4Å:- Chain C: S.28, I.29
Ligand excluded by PLIPUNL.35: 1 residues within 4Å:- Chain C: I.40
Ligand excluded by PLIPUNL.36: 1 residues within 4Å:- Ligands: UNL.33
Ligand excluded by PLIPUNL.37: 3 residues within 4Å:- Chain C: K.18, S.19, S.20
Ligand excluded by PLIPUNL.38: 1 residues within 4Å:- Chain C: V.107
Ligand excluded by PLIPUNL.39: 0 residues within 4Å:- (No contacts)
Ligand excluded by PLIPUNL.40: 4 residues within 4Å:- Chain C: V.53
- Chain D: L.24
- Ligands: UNL.28, UNL.29
Ligand excluded by PLIPUNL.41: 2 residues within 4Å:- Chain D: V.97, W.101
Ligand excluded by PLIPUNL.42: 1 residues within 4Å:- Ligands: UNL.45
Ligand excluded by PLIPUNL.43: 4 residues within 4Å:- Chain D: T.44, H.48, S.76
- Ligands: UNL.32
Ligand excluded by PLIPUNL.44: 0 residues within 4Å:- (No contacts)
Ligand excluded by PLIPUNL.45: 2 residues within 4Å:- Chain D: G.71
- Ligands: UNL.42
Ligand excluded by PLIP- 1 x FES: FE2/S2 (INORGANIC) CLUSTER(Non-covalent)
- 1 x SF4: IRON/SULFUR CLUSTER(Non-covalent)
- 1 x F3S: FE3-S4 CLUSTER(Non-covalent)
- 1 x GOL: GLYCEROL(Non-functional Binders)
- 1 x BHG: hexyl beta-D-galactopyranoside(Non-covalent)
- 1 x HEM: PROTOPORPHYRIN IX CONTAINING FE(Non-covalent)
HEM.25: 17 residues within 4Å:- Chain B: H.216
- Chain C: H.42, R.43, G.46, V.47, L.49, S.50, H.98, T.99, G.102, H.105
- Chain D: R.14, S.17, L.20, L.43, H.46, G.50
20 PLIP interactions:8 interactions with chain D, 10 interactions with chain C, 2 interactions with chain B,- Hydrophobic interactions: D:L.20, D:L.43, C:L.49, C:L.49, C:H.105
- Hydrogen bonds: D:G.50
- Water bridges: D:R.14, C:H.105, C:H.105, C:H.105, B:H.216
- Salt bridges: D:R.14, C:R.43, C:H.105, B:H.216
- pi-Stacking: D:H.46, C:H.98
- pi-Cation interactions: D:H.46
- Metal complexes: D:H.46, C:H.98
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Huang, L.S. et al., Crystallographic studies of the binding of ligands to the dicarboxylate site of Complex II, and the identity of the ligand in the. Biochim.Biophys.Acta
- Release Date
- 2006-06-20
- Peptides
- SUCCINATE DEHYDROGENASE FLAVOPROTEIN SUBUNIT: A
Succinate dehydrogenase Ip subunit: B
SUCCINATE DEHYDROGENASE CYTOCHROME B, LARGE SUBUNIT: C
Succinate dehydrogenase cytochrome B, small subunit: D - SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
NB
OC
PD
Q - Membrane
-
We predict this structure to be a membrane protein.
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.74 Å
- Oligo State
- hetero-1-1-1-1-mer
- Ligands
- 2 x K: POTASSIUM ION(Non-covalent)
- 1 x AZI: AZIDE ION(Non-covalent)
- 1 x FAD: FLAVIN-ADENINE DINUCLEOTIDE(Covalent)
- 1 x TEO: MALATE LIKE INTERMEDIATE(Non-covalent)
- 34 x UNL: UNKNOWN LIGAND(Non-functional Binders)
- 1 x FES: FE2/S2 (INORGANIC) CLUSTER(Non-covalent)
- 1 x SF4: IRON/SULFUR CLUSTER(Non-covalent)
- 1 x F3S: FE3-S4 CLUSTER(Non-covalent)
- 1 x GOL: GLYCEROL(Non-functional Binders)
- 1 x BHG: hexyl beta-D-galactopyranoside(Non-covalent)
- 1 x HEM: PROTOPORPHYRIN IX CONTAINING FE(Non-covalent)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Huang, L.S. et al., Crystallographic studies of the binding of ligands to the dicarboxylate site of Complex II, and the identity of the ligand in the. Biochim.Biophys.Acta
- Release Date
- 2006-06-20
- Peptides
- SUCCINATE DEHYDROGENASE FLAVOPROTEIN SUBUNIT: A
Succinate dehydrogenase Ip subunit: B
SUCCINATE DEHYDROGENASE CYTOCHROME B, LARGE SUBUNIT: C
Succinate dehydrogenase cytochrome B, small subunit: D - SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
NB
OC
PD
Q - Membrane
-
We predict this structure to be a membrane protein.