- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.64 Å
- Oligo State
- homo-dimer
- Ligands
- 2 x 9DG: 9-DEAZAGUANINE(Non-covalent)
- 2 x PRP: 1-O-pyrophosphono-5-O-phosphono-alpha-D-ribofuranose(Non-covalent)
PRP.2: 20 residues within 4Å:- Chain A: V.44, L.45, K.46, G.47, S.72, E.102, D.103, I.104, I.105, D.106, S.107, G.108, L.109, T.110, L.161, D.162, R.168
- Ligands: 9DG.1, MG.3, MG.4
26 PLIP interactions:26 interactions with chain A- Hydrogen bonds: A:K.46, A:G.47, A:S.72, A:D.103, A:D.106, A:S.107, A:S.107, A:G.108, A:L.109, A:T.110
- Water bridges: A:A.48, A:S.72, A:S.72, A:S.72, A:S.72, A:T.110, A:T.110, A:L.111, A:D.162, A:R.168, A:R.168, A:R.168, A:R.168, A:R.168, A:R.168
- Salt bridges: A:R.168
PRP.14: 20 residues within 4Å:- Chain B: V.44, L.45, K.46, G.47, S.72, E.102, D.103, I.104, I.105, D.106, S.107, G.108, L.109, T.110, L.161, D.162, R.168
- Ligands: 9DG.13, MG.15, MG.16
25 PLIP interactions:25 interactions with chain B- Hydrogen bonds: B:L.45, B:K.46, B:G.47, B:E.102, B:D.103, B:D.106, B:S.107, B:G.108, B:L.109, B:T.110
- Water bridges: B:A.48, B:E.102, B:I.104, B:T.110, B:T.110, B:T.110, B:L.111, B:D.162, B:R.168, B:R.168, B:R.168, B:R.168, B:R.168, B:R.168
- Salt bridges: B:R.168
- 4 x MG: MAGNESIUM ION(Non-covalent)(Non-functional Binders)
MG.3: 4 residues within 4Å:- Chain A: D.162, R.168
- Ligands: PRP.2, EDO.9
4 PLIP interactions:1 interactions with chain A, 3 Ligand-Water interactions- Metal complexes: A:D.162, H2O.3, H2O.3, H2O.5
MG.4: 3 residues within 4Å:- Chain A: V.44, G.47
- Ligands: PRP.2
No protein-ligand interaction detected (PLIP)MG.15: 3 residues within 4Å:- Chain B: D.162, R.168
- Ligands: PRP.14
4 PLIP interactions:1 interactions with chain B, 3 Ligand-Water interactions- Metal complexes: B:D.162, H2O.9, H2O.9, H2O.10
MG.16: 3 residues within 4Å:- Chain B: V.44, G.47
- Ligands: PRP.14
No protein-ligand interaction detected (PLIP)- 5 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)
PEG.5: 6 residues within 4Å:- Chain A: N.6, I.9, E.10, K.11, V.12, Y.172
1 PLIP interactions:1 interactions with chain A- Water bridges: A:V.12
PEG.6: 7 residues within 4Å:- Chain A: D.88, L.89, D.90, T.91, S.92, R.121
- Ligands: EDO.10
2 PLIP interactions:2 interactions with chain A- Hydrogen bonds: A:D.88, A:R.121
PEG.17: 6 residues within 4Å:- Chain B: N.6, I.9, E.10, K.11, V.12, Y.172
1 PLIP interactions:1 interactions with chain B- Water bridges: B:V.12
PEG.18: 3 residues within 4Å:- Chain B: E.21, L.24, E.25
No protein-ligand interaction detected (PLIP)PEG.19: 3 residues within 4Å:- Chain A: M.4
- Chain B: K.35, N.36
1 PLIP interactions:1 interactions with chain B- Hydrogen bonds: B:K.35
- 3 x ACT: ACETATE ION(Non-functional Binders)
ACT.7: 5 residues within 4Å:- Chain A: V.12, L.13, I.14, S.15, Q.18
2 PLIP interactions:2 interactions with chain A- Hydrogen bonds: A:Q.18
- Water bridges: A:S.15
ACT.20: 5 residues within 4Å:- Chain B: P.135, T.136, R.138
- Ligands: ACT.21, EDO.24
1 PLIP interactions:1 interactions with chain B- Hydrophobic interactions: B:R.138
ACT.21: 6 residues within 4Å:- Chain B: T.136, G.137, R.138, K.139, H.153
- Ligands: ACT.20
1 PLIP interactions:1 interactions with chain B- Hydrogen bonds: B:H.153
- 11 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)
EDO.8: 4 residues within 4Å:- Chain A: F.155, Y.163, Y.181
- Ligands: EDO.9
No protein-ligand interaction detected (PLIP)EDO.9: 7 residues within 4Å:- Chain A: F.155, D.162, Y.163, K.164, E.165
- Ligands: MG.3, EDO.8
1 PLIP interactions:1 interactions with chain A- Hydrogen bonds: A:K.164
EDO.10: 5 residues within 4Å:- Chain A: I.85, L.86, K.87, D.88
- Ligands: PEG.6
2 PLIP interactions:2 interactions with chain A- Hydrogen bonds: A:I.85, A:D.88
EDO.11: 4 residues within 4Å:- Chain A: P.135, T.136, G.137, R.138
2 PLIP interactions:2 interactions with chain A- Hydrogen bonds: A:R.138, A:R.138
EDO.12: 6 residues within 4Å:- Chain A: D.33, Y.34, T.37, D.97, S.125, K.127
5 PLIP interactions:5 interactions with chain A- Hydrogen bonds: A:D.33, A:K.127
- Water bridges: A:D.33, A:D.97, A:D.97
EDO.22: 3 residues within 4Å:- Chain B: F.155, Y.163, Y.181
No protein-ligand interaction detected (PLIP)EDO.23: 8 residues within 4Å:- Chain B: D.33, Y.34, T.37, D.97, K.124, S.125, K.127
- Ligands: EDO.27
4 PLIP interactions:4 interactions with chain B- Hydrogen bonds: B:D.33, B:K.127
- Water bridges: B:T.37, B:D.97
EDO.24: 5 residues within 4Å:- Chain B: R.138, K.139, V.140, D.141
- Ligands: ACT.20
1 PLIP interactions:1 interactions with chain B- Hydrogen bonds: B:V.140
EDO.25: 2 residues within 4Å:- Chain B: K.124
- Ligands: EDO.27
1 PLIP interactions:1 interactions with chain B- Water bridges: B:K.124
EDO.26: 5 residues within 4Å:- Chain A: P.171
- Chain B: L.24, K.57, R.58, D.60
2 PLIP interactions:2 interactions with chain B- Hydrogen bonds: B:R.58, B:D.60
EDO.27: 6 residues within 4Å:- Chain B: K.124, S.125, V.126, K.127
- Ligands: EDO.23, EDO.25
2 PLIP interactions:2 interactions with chain B- Water bridges: B:V.126, B:K.127
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Anderson, B.W. et al., Evolution of (p)ppGpp-HPRT regulation through diversification of an allosteric oligomeric interaction. Elife (2019)
- Release Date
- 2019-05-01
- Peptides
- Hypoxanthine phosphoribosyltransferase: AB
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
B
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.64 Å
- Oligo State
- homo-dimer
- Ligands
- 2 x 9DG: 9-DEAZAGUANINE(Non-covalent)
- 2 x PRP: 1-O-pyrophosphono-5-O-phosphono-alpha-D-ribofuranose(Non-covalent)
- 4 x MG: MAGNESIUM ION(Non-covalent)(Non-functional Binders)
- 5 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)
- 3 x ACT: ACETATE ION(Non-functional Binders)
- 11 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Anderson, B.W. et al., Evolution of (p)ppGpp-HPRT regulation through diversification of an allosteric oligomeric interaction. Elife (2019)
- Release Date
- 2019-05-01
- Peptides
- Hypoxanthine phosphoribosyltransferase: AB
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
B