- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.80 Å
- Oligo State
- homo-tetramer
- Ligands
- 8 x NA: SODIUM ION(Non-functional Binders)
- 4 x G4P: GUANOSINE-5',3'-TETRAPHOSPHATE(Non-covalent)
G4P.3: 25 residues within 4Å:- Chain A: Q.21, V.22, L.23, K.24, V.25, N.30, E.61, S.62, S.63, K.84, S.101, T.103, K.104, D.128, F.129, A.131, N.132, G.133, K.159, Q.162
- Chain B: R.83, L.88, T.89
- Ligands: NA.1, NA.2
38 PLIP interactions:5 interactions with chain B, 33 interactions with chain A- Water bridges: B:R.83, B:R.83, B:L.88, B:T.89, A:G.64, A:K.84, A:K.84, A:K.84, A:K.84, A:K.84, A:K.84, A:T.103, A:D.128, A:F.129, A:A.131, A:G.133, A:Q.134, A:Q.134, A:Q.162
- Salt bridges: B:R.83, A:K.84, A:K.84
- Hydrogen bonds: A:L.23, A:L.23, A:L.23, A:E.61, A:S.62, A:S.63, A:S.63, A:S.101, A:S.101, A:T.103, A:N.132, A:N.132, A:K.159
- pi-Stacking: A:F.129, A:F.129
- pi-Cation interactions: A:F.129
G4P.6: 24 residues within 4Å:- Chain A: R.83, L.88, T.89
- Chain B: Q.21, V.22, L.23, K.24, V.25, N.30, E.61, S.62, S.63, K.84, S.101, F.102, T.103, D.128, F.129, A.131, N.132, G.133, K.159
- Ligands: NA.4, NA.5
39 PLIP interactions:35 interactions with chain B, 4 interactions with chain A- Hydrogen bonds: B:L.23, B:L.23, B:L.23, B:S.62, B:S.63, B:S.63, B:S.101, B:S.101, B:F.102, B:N.132, B:N.132, B:K.159
- Water bridges: B:V.25, B:N.30, B:G.64, B:K.84, B:K.84, B:K.84, B:K.84, B:K.84, B:K.84, B:D.127, B:D.128, B:D.128, B:F.129, B:A.131, B:G.133, B:Q.134, B:Q.162, B:Q.162, A:E.61, A:R.83, A:R.83
- Salt bridges: B:K.84, B:K.84, A:R.83
- pi-Stacking: B:F.129, B:F.129
- pi-Cation interactions: B:F.129
G4P.9: 24 residues within 4Å:- Chain C: V.22, L.23, K.24, V.25, N.30, E.61, S.62, S.63, K.84, Y.100, S.101, F.102, T.103, D.128, F.129, A.131, N.132, G.133, K.159
- Chain D: R.83, L.88, T.89
- Ligands: NA.7, NA.8
35 PLIP interactions:32 interactions with chain C, 3 interactions with chain D- Hydrogen bonds: C:L.23, C:L.23, C:L.23, C:S.62, C:S.63, C:S.63, C:S.101, C:F.102, C:T.103, C:D.128, C:N.132, C:N.132, C:G.133, C:K.159
- Water bridges: C:V.25, C:E.61, C:G.64, C:K.84, C:K.84, C:K.84, C:K.84, C:K.84, C:K.84, C:D.127, C:A.131, C:Q.134, C:Q.162, D:R.83, D:R.83
- Salt bridges: C:K.84, C:K.84, D:R.83
- pi-Stacking: C:F.129, C:F.129
- pi-Cation interactions: C:F.129
G4P.12: 24 residues within 4Å:- Chain C: R.83, L.88, T.89
- Chain D: Q.21, V.22, L.23, K.24, V.25, N.30, E.61, S.62, S.63, K.84, S.101, F.102, T.103, D.128, F.129, A.131, N.132, G.133, K.159
- Ligands: NA.10, NA.11
33 PLIP interactions:29 interactions with chain D, 4 interactions with chain C- Hydrogen bonds: D:L.23, D:L.23, D:L.23, D:N.30, D:E.61, D:S.62, D:S.63, D:S.63, D:F.102, D:T.103, D:D.128, D:N.132, D:N.132, D:K.159
- Water bridges: D:V.25, D:G.64, D:K.84, D:K.84, D:D.127, D:D.128, D:F.129, D:A.131, D:Q.134, D:Q.162, C:R.83, C:R.83, C:R.83
- Salt bridges: D:K.84, D:K.84, C:R.83
- pi-Stacking: D:F.129, D:F.129
- pi-Cation interactions: D:F.129
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Anderson, B.W. et al., Molecular Mechanism of Regulation of the Purine Salvage Enzyme XPRT by the Alarmones pppGpp, ppGpp, and pGpp. J.Mol.Biol. (2020)
- Release Date
- 2020-07-29
- Peptides
- Xanthine phosphoribosyltransferase: ABCD
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
BC
CD
D
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.80 Å
- Oligo State
- homo-tetramer
- Ligands
- 8 x NA: SODIUM ION(Non-functional Binders)
- 4 x G4P: GUANOSINE-5',3'-TETRAPHOSPHATE(Non-covalent)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Anderson, B.W. et al., Molecular Mechanism of Regulation of the Purine Salvage Enzyme XPRT by the Alarmones pppGpp, ppGpp, and pGpp. J.Mol.Biol. (2020)
- Release Date
- 2020-07-29
- Peptides
- Xanthine phosphoribosyltransferase: ABCD
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
BC
CD
D