- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.40 Å
- Oligo State
- homo-trimer
- Ligands
- 9 x CA: CALCIUM ION(Non-covalent)
- 9 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)
EDO.4: 5 residues within 4Å:- Chain A: Y.81
- Chain B: E.78, P.79, V.80, Y.81
2 PLIP interactions:1 interactions with chain A, 1 interactions with chain C- Hydrogen bonds: A:Y.81
- Water bridges: C:N.29
EDO.5: 1 residues within 4Å:- Chain A: D.118
1 PLIP interactions:1 interactions with chain A- Water bridges: A:D.118
EDO.6: 5 residues within 4Å:- Chain A: E.78, P.79, V.80, Y.81
- Chain C: Y.81
2 PLIP interactions:1 interactions with chain B, 1 interactions with chain C- Water bridges: B:N.29
- Hydrogen bonds: C:Y.81
EDO.12: 5 residues within 4Å:- Chain A: Y.81, P.82
- Chain B: P.82
- Chain C: Y.81, P.82
1 PLIP interactions:1 interactions with chain B- Water bridges: B:P.82
EDO.13: 5 residues within 4Å:- Chain B: E.32, D.43
- Ligands: EDO.14, EDO.15, NA.17
3 PLIP interactions:3 interactions with chain B- Hydrogen bonds: B:D.43
- Water bridges: B:E.32, B:K.35
EDO.14: 7 residues within 4Å:- Chain B: D.66, D.68
- Ligands: CA.11, EDO.13, EDO.15, POP.16, NA.17
6 PLIP interactions:6 interactions with chain B- Hydrogen bonds: B:D.68
- Water bridges: B:D.66, B:D.66, B:D.66, B:D.68, B:D.101
EDO.15: 11 residues within 4Å:- Chain B: E.22, K.30, E.32, L.33, K.35, D.68
- Ligands: CA.9, EDO.13, EDO.14, POP.16, NA.17
4 PLIP interactions:4 interactions with chain B- Hydrogen bonds: B:E.32, B:K.35
- Water bridges: B:K.35, B:D.68
EDO.21: 3 residues within 4Å:- Chain C: K.127, A.128, D.131
1 PLIP interactions:1 interactions with chain C- Hydrogen bonds: C:D.131
EDO.22: 6 residues within 4Å:- Chain B: L.7, Y.18, I.85
- Chain C: D.34, K.36, K.41
2 PLIP interactions:2 interactions with chain C- Hydrogen bonds: C:K.41
- Water bridges: C:D.34
- 1 x MRD: (4R)-2-METHYLPENTANE-2,4-DIOL(Non-functional Binders)
- 3 x POP: PYROPHOSPHATE 2-(Non-covalent)
POP.8: 14 residues within 4Å:- Chain A: K.30, R.44, Y.56, D.66, D.68, D.71, D.98, D.103, K.105, Y.140, K.141
- Ligands: CA.1, CA.2, CA.3
16 PLIP interactions:16 interactions with chain A- Hydrogen bonds: A:Y.56, A:D.66, A:D.66, A:Y.140
- Water bridges: A:K.30, A:Y.52, A:D.103, A:K.105, A:Y.140, A:K.141, A:K.141
- Salt bridges: A:K.30, A:K.30, A:R.44, A:K.105, A:K.141
POP.16: 17 residues within 4Å:- Chain B: K.30, E.32, R.44, Y.56, D.66, D.68, D.71, D.98, D.103, Y.140, K.141
- Ligands: CA.9, CA.10, CA.11, EDO.14, EDO.15, NA.17
19 PLIP interactions:19 interactions with chain B- Hydrogen bonds: B:E.32, B:E.32, B:Y.56, B:D.66, B:D.68, B:D.71, B:Y.140, B:Y.140
- Water bridges: B:Y.52, B:D.66, B:D.103, B:K.105, B:K.141, B:K.141
- Salt bridges: B:K.30, B:K.30, B:R.44, B:K.105, B:K.141
POP.23: 14 residues within 4Å:- Chain C: K.30, R.44, Y.56, D.66, D.68, D.71, D.98, D.103, K.105, Y.140, K.141
- Ligands: CA.18, CA.19, CA.20
15 PLIP interactions:15 interactions with chain C- Hydrogen bonds: C:Y.56, C:Y.140
- Water bridges: C:K.30, C:Y.52, C:D.71, C:D.71, C:D.103, C:K.105, C:Y.140, C:K.141
- Salt bridges: C:K.30, C:K.30, C:R.44, C:K.105, C:K.141
- 1 x NA: SODIUM ION(Non-functional Binders)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Inoguchi, N. et al., The structure of archaeal Inorganic Pyrophosphatase in complex with pyrophosphate. To Be Published
- Release Date
- 2017-02-08
- Peptides
- Inorganic pyrophosphatase: ABC
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
BC
C
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.40 Å
- Oligo State
- homo-trimer
- Ligands
- 9 x CA: CALCIUM ION(Non-covalent)
- 9 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)
- 1 x MRD: (4R)-2-METHYLPENTANE-2,4-DIOL(Non-functional Binders)
- 3 x POP: PYROPHOSPHATE 2-(Non-covalent)
- 1 x NA: SODIUM ION(Non-functional Binders)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Inoguchi, N. et al., The structure of archaeal Inorganic Pyrophosphatase in complex with pyrophosphate. To Be Published
- Release Date
- 2017-02-08
- Peptides
- Inorganic pyrophosphatase: ABC
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
BC
C