- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.62 Å
- Oligo State
- homo-12-mer
- Ligands
- 12 x 4LR: Dimethylallyl monophosphate(Non-covalent)
- 12 x FNR: 1-DEOXY-1-(7,8-DIMETHYL-2,4-DIOXO-3,4-DIHYDRO-2H-BENZO[G]PTERIDIN-1-ID-10(5H)-YL)-5-O-PHOSPHONATO-D-RIBITOL(Non-covalent)
FNR.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
24 PLIP interactions:4 interactions with chain E, 20 interactions with chain C- Hydrophobic interactions: E:W.84, C:V.45
- Hydrogen bonds: E:R.122, 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
- Water bridges: E:C.116, E:N.117, C:K.40, C:A.41, C:S.104, C:G.106, C:G.106, C:E.121, C:E.121, C:R.139
FNR.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
24 PLIP interactions:20 interactions with chain D, 4 interactions with chain G- Hydrophobic interactions: D:V.45, G:W.84
- Hydrogen bonds: 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, G:R.122
- Water bridges: D:K.40, D:A.41, D:S.104, D:G.106, D:G.106, D:E.121, D:E.121, D:R.139, G:C.116, G:N.117
FNR.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:4 interactions with chain H, 20 interactions with chain A- Hydrophobic interactions: H:W.84, A:V.45
- Hydrogen bonds: H:R.122, 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
- Water bridges: H:C.116, H:N.117, A:K.40, A:A.41, A:S.104, A:G.106, A:G.106, A:T.107, A:N.118, A:R.139
FNR.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:20 interactions with chain B, 4 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:T.107, B:N.118, B:R.139, F:C.116, F:N.117
FNR.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:4 interactions with chain I, 20 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, G:K.40, G:A.41, G:S.104, G:G.106, G:G.106, G:E.121, G:E.121, G:R.139
FNR.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
24 PLIP interactions:20 interactions with chain H, 4 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:N.118, H:R.139, K:C.116, K:N.117
FNR.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:4 interactions with chain L, 20 interactions with chain E- Hydrophobic interactions: L:W.84, E:V.45
- Hydrogen bonds: L:R.122, 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
- Water bridges: L:C.116, L:N.117, E:K.40, E:A.41, E:S.104, E:G.106, E:G.106, E:E.121, E:E.121, E:R.139
FNR.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
24 PLIP interactions:4 interactions with chain J, 20 interactions with chain F- Hydrophobic interactions: J:W.84, F:V.45
- Hydrogen bonds: J:R.122, 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
- Water bridges: J:C.116, J:N.117, F:K.40, F:A.41, F:S.104, F:G.106, F:G.106, F:T.107, F:N.118, F:R.139
FNR.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
23 PLIP interactions:19 interactions with chain K, 4 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:E.121, K:E.121, K:R.139, A:C.116, A:N.117
FNR.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:21 interactions with chain L, 4 interactions with chain C- Hydrophobic interactions: L:V.45, C:W.84
- Hydrogen bonds: 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, C:R.122
- Water bridges: L:K.40, L:A.41, L:S.104, L:G.106, L:G.106, L:T.107, L:N.118, L:R.139, C:C.116, C:N.117
FNR.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:21 interactions with chain I, 4 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:T.107, I:N.118, I:R.139, D:C.116, D:N.117
FNR.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
23 PLIP interactions:19 interactions with chain J, 4 interactions with chain B- Hydrophobic interactions: J:V.45, B:W.84
- Hydrogen bonds: 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, B:R.122
- Water bridges: J:K.40, J:A.41, J:S.104, J:G.106, J:G.106, J:E.121, J:E.121, J:R.139, B:C.116, B:N.117
- 24 x SCN: THIOCYANATE ION(Non-functional Binders)
SCN.3: 3 residues within 4Å:- Chain A: E.31, E.33, Q.75
Ligand excluded by PLIPSCN.4: 2 residues within 4Å:- Chain A: R.131, R.132
Ligand excluded by PLIPSCN.7: 3 residues within 4Å:- Chain B: E.31, E.33, Q.75
Ligand excluded by PLIPSCN.8: 2 residues within 4Å:- Chain B: R.131, R.132
Ligand excluded by PLIPSCN.11: 3 residues within 4Å:- Chain C: E.31, E.33, Q.75
Ligand excluded by PLIPSCN.12: 2 residues within 4Å:- Chain C: R.131, R.132
Ligand excluded by PLIPSCN.15: 3 residues within 4Å:- Chain D: E.31, E.33, Q.75
Ligand excluded by PLIPSCN.16: 2 residues within 4Å:- Chain D: R.131, R.132
Ligand excluded by PLIPSCN.19: 3 residues within 4Å:- Chain E: E.31, E.33, Q.75
Ligand excluded by PLIPSCN.20: 2 residues within 4Å:- Chain E: R.131, R.132
Ligand excluded by PLIPSCN.23: 3 residues within 4Å:- Chain F: E.31, E.33, Q.75
Ligand excluded by PLIPSCN.24: 2 residues within 4Å:- Chain F: R.131, R.132
Ligand excluded by PLIPSCN.27: 3 residues within 4Å:- Chain G: E.31, E.33, Q.75
Ligand excluded by PLIPSCN.28: 2 residues within 4Å:- Chain G: R.131, R.132
Ligand excluded by PLIPSCN.31: 3 residues within 4Å:- Chain H: E.31, E.33, Q.75
Ligand excluded by PLIPSCN.32: 2 residues within 4Å:- Chain H: R.131, R.132
Ligand excluded by PLIPSCN.35: 3 residues within 4Å:- Chain I: E.31, E.33, Q.75
Ligand excluded by PLIPSCN.36: 2 residues within 4Å:- Chain I: R.131, R.132
Ligand excluded by PLIPSCN.39: 3 residues within 4Å:- Chain J: E.31, E.33, Q.75
Ligand excluded by PLIPSCN.40: 2 residues within 4Å:- Chain J: R.131, R.132
Ligand excluded by PLIPSCN.43: 3 residues within 4Å:- Chain K: E.31, E.33, Q.75
Ligand excluded by PLIPSCN.44: 2 residues within 4Å:- Chain K: R.131, R.132
Ligand excluded by PLIPSCN.47: 3 residues within 4Å:- Chain L: E.31, E.33, Q.75
Ligand excluded by PLIPSCN.48: 2 residues within 4Å:- Chain L: R.131, R.132
Ligand excluded by PLIP- 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
- UbiX: 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 1.62 Å
- Oligo State
- homo-12-mer
- Ligands
- 12 x 4LR: Dimethylallyl monophosphate(Non-covalent)
- 12 x FNR: 1-DEOXY-1-(7,8-DIMETHYL-2,4-DIOXO-3,4-DIHYDRO-2H-BENZO[G]PTERIDIN-1-ID-10(5H)-YL)-5-O-PHOSPHONATO-D-RIBITOL(Non-covalent)
- 24 x SCN: THIOCYANATE ION(Non-functional Binders)
- 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
- UbiX: ABCDEFGHIJKL
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
AC
AD
AE
AF
AG
AH
AI
AJ
AK
AL
A