- Coordinates
- PDB Format
- Method
- ELECTRON MICROSCOPY
- Oligo State
- hetero-12-12-mer
- Ligands
- 12 x ATP: ADENOSINE-5'-TRIPHOSPHATE(Non-covalent)
- 12 x ADP: ADENOSINE-5'-DIPHOSPHATE(Non-covalent)
ADP.2: 20 residues within 4Å:- Chain A: A.35, G.36, C.37, G.38, K.39, T.40, L.41, S.76, L.77, R.203, I.224
- Chain B: V.208, K.209, Y.210, R.211, G.212, T.213, A.214, H.215
- Ligands: MG.4
19 PLIP interactions:7 interactions with chain B, 12 interactions with chain A- Hydrogen bonds: B:Y.210, B:A.214, B:H.215, A:G.36, A:C.37, A:G.38, A:K.39, A:T.40, A:T.40, A:L.41, A:S.76, A:S.76, A:R.203, A:R.203
- Water bridges: B:K.209, B:K.209
- Salt bridges: B:K.209, B:K.209, A:K.39
ADP.7: 20 residues within 4Å:- Chain B: A.35, G.36, C.37, G.38, K.39, T.40, L.41, S.76, L.77, R.203, I.224
- Chain C: V.208, K.209, Y.210, R.211, G.212, T.213, A.214, H.215
- Ligands: MG.9
19 PLIP interactions:12 interactions with chain B, 7 interactions with chain C- Hydrogen bonds: B:G.36, B:C.37, B:G.38, B:K.39, B:T.40, B:T.40, B:L.41, B:S.76, B:S.76, B:R.203, B:R.203, C:Y.210, C:A.214, C:H.215
- Salt bridges: B:K.39, C:K.209, C:K.209
- Water bridges: C:K.209, C:K.209
ADP.11: 19 residues within 4Å:- Chain C: A.35, G.36, C.37, G.38, K.39, T.40, L.41, S.76, L.77, R.203, I.224
- Chain D: K.209, Y.210, R.211, G.212, T.213, A.214, H.215
- Ligands: MG.13
19 PLIP interactions:12 interactions with chain C, 7 interactions with chain D- Hydrogen bonds: C:G.36, C:C.37, C:G.38, C:K.39, C:T.40, C:T.40, C:L.41, C:S.76, C:S.76, C:R.203, C:R.203, D:Y.210, D:A.214, D:H.215
- Salt bridges: C:K.39, D:K.209, D:K.209
- Water bridges: D:K.209, D:K.209
ADP.15: 20 residues within 4Å:- Chain D: A.35, G.36, C.37, G.38, K.39, T.40, L.41, S.76, L.77, R.203, I.224
- Chain E: V.208, K.209, Y.210, R.211, G.212, T.213, A.214, H.215
- Ligands: MG.17
19 PLIP interactions:13 interactions with chain D, 6 interactions with chain E- Hydrogen bonds: D:G.36, D:C.37, D:G.38, D:K.39, D:T.40, D:T.40, D:L.41, D:S.76, D:S.76, D:R.203, D:R.203, E:Y.210, E:A.214, E:H.215
- Water bridges: D:T.40, E:K.209
- Salt bridges: D:K.39, E:K.209, E:K.209
ADP.19: 20 residues within 4Å:- Chain E: A.35, G.36, C.37, G.38, K.39, T.40, L.41, S.76, L.77, R.203, I.224
- Chain F: V.208, K.209, Y.210, R.211, G.212, T.213, A.214, H.215
- Ligands: MG.21
19 PLIP interactions:12 interactions with chain E, 7 interactions with chain F- Hydrogen bonds: E:G.36, E:C.37, E:G.38, E:K.39, E:T.40, E:T.40, E:L.41, E:S.76, E:S.76, E:R.203, E:R.203, F:Y.210, F:A.214, F:H.215
- Salt bridges: E:K.39, F:K.209, F:K.209
- Water bridges: F:K.209, F:K.209
ADP.23: 20 residues within 4Å:- Chain A: V.208, K.209, Y.210, R.211, G.212, T.213, A.214, H.215
- Chain F: A.35, G.36, C.37, G.38, K.39, T.40, L.41, S.76, L.77, R.203, I.224
- Ligands: MG.5
19 PLIP interactions:12 interactions with chain F, 7 interactions with chain A- Hydrogen bonds: F:G.36, F:C.37, F:G.38, F:K.39, F:T.40, F:T.40, F:L.41, F:S.76, F:S.76, F:R.203, F:R.203, A:Y.210, A:A.214, A:H.215
- Salt bridges: F:K.39, A:K.209, A:K.209
- Water bridges: A:K.209, A:K.209
ADP.26: 20 residues within 4Å:- Chain G: A.35, G.36, C.37, G.38, K.39, T.40, L.41, S.76, L.77, R.203, I.224
- Chain H: V.208, K.209, Y.210, R.211, G.212, T.213, A.214, H.215
- Ligands: MG.28
20 PLIP interactions:13 interactions with chain G, 7 interactions with chain H- Hydrogen bonds: G:G.36, G:C.37, G:G.38, G:K.39, G:T.40, G:T.40, G:T.40, G:L.41, G:S.76, G:S.76, G:R.203, G:R.203, H:Y.210, H:A.214, H:H.215
- Salt bridges: G:K.39, H:K.209, H:K.209
- Water bridges: H:K.209, H:K.209
ADP.30: 20 residues within 4Å:- Chain H: A.35, G.36, C.37, G.38, K.39, T.40, L.41, S.76, L.77, R.203, I.224
- Chain I: V.208, K.209, Y.210, R.211, G.212, T.213, A.214, H.215
- Ligands: MG.32
20 PLIP interactions:13 interactions with chain H, 7 interactions with chain I- Hydrogen bonds: H:G.36, H:C.37, H:G.38, H:K.39, H:T.40, H:T.40, H:T.40, H:L.41, H:S.76, H:S.76, H:R.203, H:R.203, I:Y.210, I:A.214, I:H.215
- Salt bridges: H:K.39, I:K.209, I:K.209
- Water bridges: I:K.209, I:K.209
ADP.34: 20 residues within 4Å:- Chain I: A.35, G.36, C.37, G.38, K.39, T.40, L.41, S.76, L.77, R.203, I.224
- Chain J: V.208, K.209, Y.210, R.211, G.212, T.213, A.214, H.215
- Ligands: MG.36
20 PLIP interactions:13 interactions with chain I, 7 interactions with chain J- Hydrogen bonds: I:G.36, I:C.37, I:G.38, I:K.39, I:T.40, I:T.40, I:T.40, I:L.41, I:S.76, I:S.76, I:R.203, I:R.203, J:Y.210, J:A.214, J:H.215
- Salt bridges: I:K.39, J:K.209, J:K.209
- Water bridges: J:K.209, J:K.209
ADP.38: 19 residues within 4Å:- Chain J: A.35, G.36, C.37, G.38, K.39, T.40, L.41, S.76, L.77, R.203, I.224
- Chain K: K.209, Y.210, R.211, G.212, T.213, A.214, H.215
- Ligands: MG.40
20 PLIP interactions:7 interactions with chain K, 13 interactions with chain J- Hydrogen bonds: K:Y.210, K:A.214, K:H.215, J:G.36, J:C.37, J:G.38, J:K.39, J:T.40, J:T.40, J:T.40, J:L.41, J:S.76, J:S.76, J:R.203, J:R.203
- Water bridges: K:K.209, K:K.209
- Salt bridges: K:K.209, K:K.209, J:K.39
ADP.42: 20 residues within 4Å:- Chain K: A.35, G.36, C.37, G.38, K.39, T.40, L.41, S.76, L.77, R.203, I.224
- Chain L: V.208, K.209, Y.210, R.211, G.212, T.213, A.214, H.215
- Ligands: MG.44
20 PLIP interactions:13 interactions with chain K, 7 interactions with chain L- Hydrogen bonds: K:G.36, K:C.37, K:G.38, K:K.39, K:T.40, K:T.40, K:T.40, K:L.41, K:S.76, K:S.76, K:R.203, K:R.203, L:Y.210, L:A.214, L:H.215
- Salt bridges: K:K.39, L:K.209, L:K.209
- Water bridges: L:K.209, L:K.209
ADP.46: 20 residues within 4Å:- Chain G: V.208, K.209, Y.210, R.211, G.212, T.213, A.214, H.215
- Chain L: A.35, G.36, C.37, G.38, K.39, T.40, L.41, S.76, L.77, R.203, I.224
- Ligands: MG.48
19 PLIP interactions:6 interactions with chain G, 13 interactions with chain L- Hydrogen bonds: G:Y.210, G:H.215, L:G.36, L:C.37, L:G.38, L:K.39, L:T.40, L:T.40, L:T.40, L:L.41, L:S.76, L:S.76, L:R.203, L:R.203
- Water bridges: G:K.209, G:K.209
- Salt bridges: G:K.209, G:K.209, L:K.39
- 24 x MG: MAGNESIUM ION(Non-covalent)
MG.3: 4 residues within 4Å:- Chain A: S.281, E.305, D.364
- Ligands: ATP.1
3 PLIP interactions:1 interactions with chain A, 2 Ligand-Water interactions- Metal complexes: A:S.281, H2O.1, H2O.1
MG.4: 3 residues within 4Å:- Chain A: T.40
- Chain B: K.209
- Ligands: ADP.2
3 PLIP interactions:1 interactions with chain A, 2 Ligand-Water interactions- Metal complexes: A:T.40, H2O.1, H2O.1
MG.5: 3 residues within 4Å:- Chain A: K.209
- Chain F: T.40
- Ligands: ADP.23
3 PLIP interactions:1 interactions with chain F, 2 Ligand-Water interactions- Metal complexes: F:T.40, H2O.1, H2O.1
MG.8: 4 residues within 4Å:- Chain B: S.281, E.305, D.364
- Ligands: ATP.6
3 PLIP interactions:1 interactions with chain B, 2 Ligand-Water interactions- Metal complexes: B:S.281, H2O.1, H2O.1
MG.9: 3 residues within 4Å:- Chain B: T.40
- Chain C: K.209
- Ligands: ADP.7
3 PLIP interactions:1 interactions with chain B, 2 Ligand-Water interactions- Metal complexes: B:T.40, H2O.1, H2O.1
MG.12: 4 residues within 4Å:- Chain C: S.281, E.305, D.364
- Ligands: ATP.10
3 PLIP interactions:1 interactions with chain C, 2 Ligand-Water interactions- Metal complexes: C:S.281, H2O.1, H2O.1
MG.13: 3 residues within 4Å:- Chain C: T.40
- Chain D: K.209
- Ligands: ADP.11
3 PLIP interactions:1 interactions with chain C, 2 Ligand-Water interactions- Metal complexes: C:T.40, H2O.1, H2O.1
MG.16: 4 residues within 4Å:- Chain D: S.281, E.305, D.364
- Ligands: ATP.14
3 PLIP interactions:1 interactions with chain D, 2 Ligand-Water interactions- Metal complexes: D:S.281, H2O.1, H2O.1
MG.17: 3 residues within 4Å:- Chain D: T.40
- Chain E: K.209
- Ligands: ADP.15
3 PLIP interactions:1 interactions with chain D, 2 Ligand-Water interactions- Metal complexes: D:T.40, H2O.1, H2O.1
MG.20: 4 residues within 4Å:- Chain E: S.281, E.305, D.364
- Ligands: ATP.18
3 PLIP interactions:1 interactions with chain E, 2 Ligand-Water interactions- Metal complexes: E:S.281, H2O.1, H2O.1
MG.21: 3 residues within 4Å:- Chain E: T.40
- Chain F: K.209
- Ligands: ADP.19
3 PLIP interactions:1 interactions with chain E, 2 Ligand-Water interactions- Metal complexes: E:T.40, H2O.1, H2O.1
MG.24: 4 residues within 4Å:- Chain F: S.281, E.305, D.364
- Ligands: ATP.22
3 PLIP interactions:1 interactions with chain F, 2 Ligand-Water interactions- Metal complexes: F:S.281, H2O.1, H2O.1
MG.27: 4 residues within 4Å:- Chain G: S.281, E.305, D.364
- Ligands: ATP.25
3 PLIP interactions:1 interactions with chain G, 2 Ligand-Water interactions- Metal complexes: G:S.281, H2O.1, H2O.2
MG.28: 3 residues within 4Å:- Chain G: T.40
- Chain H: K.209
- Ligands: ADP.26
3 PLIP interactions:1 interactions with chain G, 2 Ligand-Water interactions- Metal complexes: G:T.40, H2O.1, H2O.2
MG.31: 4 residues within 4Å:- Chain H: S.281, E.305, D.364
- Ligands: ATP.29
3 PLIP interactions:1 interactions with chain H, 2 Ligand-Water interactions- Metal complexes: H:S.281, H2O.2, H2O.2
MG.32: 3 residues within 4Å:- Chain H: T.40
- Chain I: K.209
- Ligands: ADP.30
3 PLIP interactions:1 interactions with chain H, 2 Ligand-Water interactions- Metal complexes: H:T.40, H2O.2, H2O.2
MG.35: 4 residues within 4Å:- Chain I: S.281, E.305, D.364
- Ligands: ATP.33
3 PLIP interactions:1 interactions with chain I, 2 Ligand-Water interactions- Metal complexes: I:S.281, H2O.2, H2O.2
MG.36: 3 residues within 4Å:- Chain I: T.40
- Chain J: K.209
- Ligands: ADP.34
3 PLIP interactions:1 interactions with chain I, 2 Ligand-Water interactions- Metal complexes: I:T.40, H2O.2, H2O.2
MG.39: 4 residues within 4Å:- Chain J: S.281, E.305, D.364
- Ligands: ATP.37
3 PLIP interactions:1 interactions with chain J, 2 Ligand-Water interactions- Metal complexes: J:S.281, H2O.2, H2O.2
MG.40: 3 residues within 4Å:- Chain J: T.40
- Chain K: K.209
- Ligands: ADP.38
3 PLIP interactions:1 interactions with chain J, 2 Ligand-Water interactions- Metal complexes: J:T.40, H2O.2, H2O.2
MG.43: 4 residues within 4Å:- Chain K: S.281, E.305, D.364
- Ligands: ATP.41
3 PLIP interactions:1 interactions with chain K, 2 Ligand-Water interactions- Metal complexes: K:S.281, H2O.2, H2O.2
MG.44: 3 residues within 4Å:- Chain K: T.40
- Chain L: K.209
- Ligands: ADP.42
3 PLIP interactions:1 interactions with chain K, 2 Ligand-Water interactions- Metal complexes: K:T.40, H2O.2, H2O.2
MG.47: 4 residues within 4Å:- Chain L: S.281, E.305, D.364
- Ligands: ATP.45
3 PLIP interactions:1 interactions with chain L, 2 Ligand-Water interactions- Metal complexes: L:S.281, H2O.2, H2O.2
MG.48: 3 residues within 4Å:- Chain G: K.209
- Chain L: T.40
- Ligands: ADP.46
3 PLIP interactions:1 interactions with chain L, 2 Ligand-Water interactions- Metal complexes: L:T.40, H2O.2, H2O.2
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Pitsawong, W. et al., From primordial clocks to circadian oscillators. Nature (2023)
- Release Date
- 2023-03-22
- Peptides
- Circadian clock protein KaiC: ABCDEFGHIJKL
Circadian clock protein KaiB: MNOPQRSTUVWX - SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
BC
CD
DE
EF
FG
GH
HI
IJ
JK
KL
LM
MN
NO
OP
PQ
QR
RS
ST
TU
UV
VW
WX
X
- Coordinates
- PDB Format
- Method
- ELECTRON MICROSCOPY
- Oligo State
- hetero-12-12-mer
- Ligands
- 12 x ATP: ADENOSINE-5'-TRIPHOSPHATE(Non-covalent)
- 12 x ADP: ADENOSINE-5'-DIPHOSPHATE(Non-covalent)
- 24 x MG: MAGNESIUM ION(Non-covalent)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Pitsawong, W. et al., From primordial clocks to circadian oscillators. Nature (2023)
- Release Date
- 2023-03-22
- Peptides
- Circadian clock protein KaiC: ABCDEFGHIJKL
Circadian clock protein KaiB: MNOPQRSTUVWX - SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
BC
CD
DE
EF
FG
GH
HI
IJ
JK
KL
LM
MN
NO
OP
PQ
QR
RS
ST
TU
UV
VW
WX
X