- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.68 Å
- Oligo State
- homo-12-mer
- Ligands
- 12 x 4LR: Dimethylallyl monophosphate(Non-covalent)
- 12 x FMN: FLAVIN MONONUCLEOTIDE(Non-covalent)
FMN.2: 17 residues within 4Å:- Chain C: T.12, G.13, A.14, S.15, S.39, A.41, V.45, Q.49, S.104, T.105, T.107, R.139, E.140
- Chain E: W.84, C.116, R.122
- Ligands: 4LR.1
26 PLIP interactions:21 interactions with chain C, 5 interactions with chain E- Hydrophobic interactions: C:V.45, E:W.84
- Hydrogen bonds: C:G.13, C:G.13, C:S.15, C:S.39, C:S.39, C:S.104, C:T.105, C:T.107, C:R.139, C:R.139, C:E.140, E:R.122
- Water bridges: C:K.40, C:A.41, C:S.104, C:G.106, C:G.106, C:T.107, C:T.107, C:E.121, C:R.139, E:C.116, E:N.117, E:N.118
FMN.6: 17 residues within 4Å:- Chain D: T.12, G.13, A.14, S.15, S.39, A.41, V.45, Q.49, S.104, T.105, T.107, R.139, E.140
- Chain G: W.84, C.116, R.122
- Ligands: 4LR.5
26 PLIP interactions:5 interactions with chain G, 21 interactions with chain D- Hydrophobic interactions: G:W.84, D:V.45
- Hydrogen bonds: G:R.122, D:G.13, D:G.13, D:S.15, D:S.39, D:S.39, D:S.104, D:T.105, D:T.107, D:R.139, D:R.139, D:E.140
- Water bridges: G:C.116, G:N.117, G:N.118, D:K.40, D:A.41, D:S.104, D:G.106, D:G.106, D:T.107, D:T.107, D:E.121, D:R.139
FMN.10: 17 residues within 4Å:- Chain A: T.12, G.13, A.14, S.15, S.39, A.41, V.45, Q.49, S.104, T.105, T.107, R.139, E.140
- Chain H: W.84, C.116, R.122
- Ligands: 4LR.9
24 PLIP interactions:19 interactions with chain A, 5 interactions with chain H- Hydrophobic interactions: A:V.45, H:W.84
- Hydrogen bonds: A:G.13, A:G.13, A:S.15, A:S.39, A:S.39, A:S.104, A:T.105, A:T.107, A:T.107, A:R.139, A:R.139, H:R.122
- Water bridges: A:K.40, A:A.41, A:S.104, A:G.106, A:G.106, A:N.118, A:R.139, H:C.116, H:N.117, H:N.118
FMN.14: 17 residues within 4Å:- Chain B: T.12, G.13, A.14, S.15, S.39, A.41, V.45, Q.49, S.104, T.105, T.107, R.139, E.140
- Chain F: W.84, C.116, R.122
- Ligands: 4LR.13
24 PLIP interactions:19 interactions with chain B, 5 interactions with chain F- Hydrophobic interactions: B:V.45, F:W.84
- Hydrogen bonds: B:G.13, B:G.13, B:S.15, B:S.39, B:S.39, B:S.104, B:T.105, B:T.107, B:T.107, B:R.139, B:R.139, F:R.122
- Water bridges: B:K.40, B:A.41, B:S.104, B:G.106, B:G.106, B:N.118, B:R.139, F:C.116, F:N.117, F:N.118
FMN.18: 17 residues within 4Å:- Chain G: T.12, G.13, A.14, S.15, S.39, A.41, V.45, Q.49, S.104, T.105, T.107, R.139, E.140
- Chain I: W.84, C.116, R.122
- Ligands: 4LR.17
24 PLIP interactions:5 interactions with chain I, 19 interactions with chain G- Hydrophobic interactions: I:W.84, G:V.45
- Hydrogen bonds: I:R.122, G:G.13, G:G.13, G:S.15, G:S.39, G:S.39, G:S.104, G:T.105, G:T.107, G:T.107, G:R.139, G:R.139
- Water bridges: I:C.116, I:N.117, I:N.118, G:K.40, G:A.41, G:S.104, G:G.106, G:G.106, G:E.121, G:R.139
FMN.22: 17 residues within 4Å:- Chain H: T.12, G.13, A.14, S.15, S.39, A.41, V.45, Q.49, S.104, T.105, T.107, R.139, E.140
- Chain K: W.84, C.116, R.122
- Ligands: 4LR.21
26 PLIP interactions:21 interactions with chain H, 5 interactions with chain K- Hydrophobic interactions: H:V.45, K:W.84
- Hydrogen bonds: H:G.13, H:G.13, H:S.15, H:S.39, H:S.39, H:S.104, H:T.105, H:T.107, H:R.139, H:R.139, H:E.140, K:R.122
- Water bridges: H:K.40, H:A.41, H:S.104, H:G.106, H:G.106, H:T.107, H:T.107, H:N.118, H:R.139, K:C.116, K:N.117, K:N.118
FMN.26: 17 residues within 4Å:- Chain E: T.12, G.13, A.14, S.15, S.39, A.41, V.45, Q.49, S.104, T.105, T.107, R.139, E.140
- Chain L: W.84, C.116, R.122
- Ligands: 4LR.25
24 PLIP interactions:19 interactions with chain E, 5 interactions with chain L- Hydrophobic interactions: E:V.45, L:W.84
- Hydrogen bonds: E:G.13, E:G.13, E:S.15, E:S.39, E:S.39, E:S.104, E:T.105, E:T.107, E:T.107, E:R.139, E:R.139, L:R.122
- Water bridges: E:K.40, E:A.41, E:S.104, E:G.106, E:G.106, E:E.121, E:R.139, L:C.116, L:N.117, L:N.118
FMN.30: 17 residues within 4Å:- Chain F: T.12, G.13, A.14, S.15, S.39, A.41, V.45, Q.49, S.104, T.105, T.107, R.139, E.140
- Chain J: W.84, C.116, R.122
- Ligands: 4LR.29
26 PLIP interactions:21 interactions with chain F, 5 interactions with chain J- Hydrophobic interactions: F:V.45, J:W.84
- Hydrogen bonds: F:G.13, F:G.13, F:S.15, F:S.39, F:S.39, F:S.104, F:T.105, F:T.107, F:R.139, F:R.139, F:E.140, J:R.122
- Water bridges: F:K.40, F:A.41, F:S.104, F:G.106, F:G.106, F:T.107, F:T.107, F:N.118, F:R.139, J:C.116, J:N.117, J:N.118
FMN.34: 17 residues within 4Å:- Chain A: W.84, C.116, R.122
- Chain K: T.12, G.13, A.14, S.15, S.39, A.41, V.45, Q.49, S.104, T.105, T.107, R.139, E.140
- Ligands: 4LR.33
25 PLIP interactions:20 interactions with chain K, 5 interactions with chain A- Hydrophobic interactions: K:V.45, A:W.84
- Hydrogen bonds: K:G.13, K:G.13, K:S.15, K:S.39, K:S.39, K:S.104, K:T.105, K:T.107, K:R.139, K:R.139, A:R.122
- Water bridges: K:K.40, K:A.41, K:S.104, K:G.106, K:G.106, K:T.107, K:T.107, K:E.121, K:R.139, A:C.116, A:N.117, A:N.118
FMN.38: 17 residues within 4Å:- Chain C: W.84, C.116, R.122
- Chain L: T.12, G.13, A.14, S.15, S.39, A.41, V.45, Q.49, S.104, T.105, T.107, R.139, E.140
- Ligands: 4LR.37
25 PLIP interactions:5 interactions with chain C, 20 interactions with chain L- Hydrophobic interactions: C:W.84, L:V.45
- Hydrogen bonds: C:R.122, L:G.13, L:G.13, L:S.15, L:S.39, L:S.39, L:S.104, L:T.105, L:T.107, L:T.107, L:R.139, L:R.139, L:E.140
- Water bridges: C:C.116, C:N.117, C:N.118, L:K.40, L:A.41, L:S.104, L:G.106, L:G.106, L:N.118, L:R.139
FMN.42: 17 residues within 4Å:- Chain D: W.84, C.116, R.122
- Chain I: T.12, G.13, A.14, S.15, S.39, A.41, V.45, Q.49, S.104, T.105, T.107, R.139, E.140
- Ligands: 4LR.41
25 PLIP interactions:20 interactions with chain I, 5 interactions with chain D- Hydrophobic interactions: I:V.45, D:W.84
- Hydrogen bonds: I:G.13, I:G.13, I:S.15, I:S.39, I:S.39, I:S.104, I:T.105, I:T.107, I:T.107, I:R.139, I:R.139, I:E.140, D:R.122
- Water bridges: I:K.40, I:A.41, I:S.104, I:G.106, I:G.106, I:N.118, I:R.139, D:C.116, D:N.117, D:N.118
FMN.46: 17 residues within 4Å:- Chain B: W.84, C.116, R.122
- Chain J: T.12, G.13, A.14, S.15, S.39, A.41, V.45, Q.49, S.104, T.105, T.107, R.139, E.140
- Ligands: 4LR.45
25 PLIP interactions:5 interactions with chain B, 20 interactions with chain J- Hydrophobic interactions: B:W.84, J:V.45
- Hydrogen bonds: B:R.122, J:G.13, J:G.13, J:S.15, J:S.39, J:S.39, J:S.104, J:T.105, J:T.107, J:R.139, J:R.139
- Water bridges: B:C.116, B:N.117, B:N.118, J:K.40, J:A.41, J:S.104, J:G.106, J:G.106, J:T.107, J:T.107, J:E.121, J:R.139
- 12 x SCN: THIOCYANATE ION(Non-functional Binders)
SCN.3: 6 residues within 4Å:- Chain A: P.4, P.95, N.96, A.97, R.132, P.133
No protein-ligand interaction detected (PLIP)SCN.7: 6 residues within 4Å:- Chain B: P.4, P.95, N.96, A.97, R.132, P.133
No protein-ligand interaction detected (PLIP)SCN.11: 6 residues within 4Å:- Chain C: P.4, P.95, N.96, A.97, R.132, P.133
No protein-ligand interaction detected (PLIP)SCN.15: 6 residues within 4Å:- Chain D: P.4, P.95, N.96, A.97, R.132, P.133
No protein-ligand interaction detected (PLIP)SCN.19: 6 residues within 4Å:- Chain E: P.4, P.95, N.96, A.97, R.132, P.133
No protein-ligand interaction detected (PLIP)SCN.23: 6 residues within 4Å:- Chain F: P.4, P.95, N.96, A.97, R.132, P.133
No protein-ligand interaction detected (PLIP)SCN.27: 6 residues within 4Å:- Chain G: P.4, P.95, N.96, A.97, R.132, P.133
No protein-ligand interaction detected (PLIP)SCN.31: 6 residues within 4Å:- Chain H: P.4, P.95, N.96, A.97, R.132, P.133
No protein-ligand interaction detected (PLIP)SCN.35: 6 residues within 4Å:- Chain I: P.4, P.95, N.96, A.97, R.132, P.133
No protein-ligand interaction detected (PLIP)SCN.39: 6 residues within 4Å:- Chain J: P.4, P.95, N.96, A.97, R.132, P.133
No protein-ligand interaction detected (PLIP)SCN.43: 6 residues within 4Å:- Chain K: P.4, P.95, N.96, A.97, R.132, P.133
No protein-ligand interaction detected (PLIP)SCN.47: 6 residues within 4Å:- Chain L: P.4, P.95, N.96, A.97, R.132, P.133
No protein-ligand interaction detected (PLIP)- 12 x K: POTASSIUM ION(Non-covalent)
K.4: 5 residues within 4Å:- Chain A: S.15, V.45, Q.49
- Chain C: F.168, Y.169
2 PLIP interactions:1 interactions with chain A, 1 Ligand-Water interactions- Metal complexes: A:S.15, H2O.5
K.8: 5 residues within 4Å:- Chain B: S.15, V.45, Q.49
- Chain D: F.168, Y.169
2 PLIP interactions:1 interactions with chain B, 1 Ligand-Water interactions- Metal complexes: B:S.15, H2O.10
K.12: 5 residues within 4Å:- Chain A: F.168, Y.169
- Chain C: S.15, V.45, Q.49
2 PLIP interactions:1 interactions with chain C, 1 Ligand-Water interactions- Metal complexes: C:S.15, H2O.15
K.16: 5 residues within 4Å:- Chain B: F.168, Y.169
- Chain D: S.15, V.45, Q.49
2 PLIP interactions:1 interactions with chain D, 1 Ligand-Water interactions- Metal complexes: D:S.15, H2O.21
K.20: 5 residues within 4Å:- Chain E: S.15, V.45, Q.49
- Chain G: F.168, Y.169
2 PLIP interactions:1 interactions with chain E, 1 Ligand-Water interactions- Metal complexes: E:S.15, H2O.26
K.24: 5 residues within 4Å:- Chain F: S.15, V.45, Q.49
- Chain H: F.168, Y.169
2 PLIP interactions:1 interactions with chain F, 1 Ligand-Water interactions- Metal complexes: F:S.15, H2O.32
K.28: 5 residues within 4Å:- Chain E: F.168, Y.169
- Chain G: S.15, V.45, Q.49
2 PLIP interactions:1 interactions with chain G, 1 Ligand-Water interactions- Metal complexes: G:S.15, H2O.37
K.32: 5 residues within 4Å:- Chain F: F.168, Y.169
- Chain H: S.15, V.45, Q.49
2 PLIP interactions:1 interactions with chain H, 1 Ligand-Water interactions- Metal complexes: H:S.15, H2O.43
K.36: 5 residues within 4Å:- Chain I: S.15, V.45, Q.49
- Chain K: F.168, Y.169
2 PLIP interactions:1 interactions with chain I, 1 Ligand-Water interactions- Metal complexes: I:S.15, H2O.48
K.40: 5 residues within 4Å:- Chain J: S.15, V.45, Q.49
- Chain L: F.168, Y.169
2 PLIP interactions:1 interactions with chain J, 1 Ligand-Water interactions- Metal complexes: J:S.15, H2O.53
K.44: 5 residues within 4Å:- Chain I: F.168, Y.169
- Chain K: S.15, V.45, Q.49
2 PLIP interactions:1 interactions with chain K, 1 Ligand-Water interactions- Metal complexes: K:S.15, H2O.59
K.48: 5 residues within 4Å:- Chain J: F.168, Y.169
- Chain L: S.15, V.45, Q.49
2 PLIP interactions:1 interactions with chain L, 1 Ligand-Water interactions- Metal complexes: L:S.15, H2O.64
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- White, M.D. et al., UbiX is a flavin prenyltransferase required for bacterial ubiquinone biosynthesis. Nature (2015)
- Release Date
- 2015-06-17
- Peptides
- Probable aromatic acid decarboxylase: ABCDEFGHIJKL
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
AC
AD
AE
AF
AG
AH
AI
AJ
AK
AL
A
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.68 Å
- Oligo State
- homo-12-mer
- Ligands
- 12 x 4LR: Dimethylallyl monophosphate(Non-covalent)
- 12 x FMN: FLAVIN MONONUCLEOTIDE(Non-covalent)
- 12 x SCN: THIOCYANATE ION(Non-functional Binders)
- 12 x K: POTASSIUM ION(Non-covalent)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- White, M.D. et al., UbiX is a flavin prenyltransferase required for bacterial ubiquinone biosynthesis. Nature (2015)
- Release Date
- 2015-06-17
- Peptides
- Probable aromatic acid decarboxylase: ABCDEFGHIJKL
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
AC
AD
AE
AF
AG
AH
AI
AJ
AK
AL
A