- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.24 Å
- Oligo State
- homo-tetramer
- Ligands
- 4 x GTP: GUANOSINE-5'-TRIPHOSPHATE(Non-covalent)
- 4 x APC: DIPHOSPHOMETHYLPHOSPHONIC ACID ADENOSYL ESTER(Non-covalent)
APC.2: 16 residues within 4Å:- Chain A: E.76, R.78, K.80, S.84, K.88, R.91, D.107, G.110, I.111, R.112, E.174, Q.176, H.190, Y.194
- Ligands: GTP.1, MG.3
15 PLIP interactions:15 interactions with chain A- Hydrogen bonds: A:R.78, A:S.84, A:S.84, A:R.112, A:R.112, A:E.174, A:E.174, A:Q.176
- Water bridges: A:E.76, A:R.91
- Salt bridges: A:K.80, A:K.88, A:R.91
- pi-Cation interactions: A:R.78, A:R.112
APC.6: 17 residues within 4Å:- Chain B: E.76, R.77, R.78, K.80, S.84, K.88, R.91, D.107, G.110, I.111, R.112, E.174, Q.176, H.190, Y.194
- Ligands: GTP.5, MG.7
16 PLIP interactions:16 interactions with chain B- Hydrogen bonds: B:R.78, B:S.84, B:S.84, B:D.107, B:I.111, B:R.112, B:R.112, B:E.174, B:Q.176
- Water bridges: B:K.88, B:D.107
- Salt bridges: B:K.80, B:K.88, B:R.91
- pi-Cation interactions: B:R.78, B:R.112
APC.9: 16 residues within 4Å:- Chain C: E.76, R.78, K.80, S.84, K.88, R.91, D.107, G.110, I.111, R.112, E.174, Q.176, H.190, Y.194
- Ligands: GTP.8, MG.10
13 PLIP interactions:13 interactions with chain C- Hydrogen bonds: C:R.78, C:S.84, C:S.84, C:R.112, C:R.112, C:E.174, C:Q.176
- Water bridges: C:R.91
- Salt bridges: C:K.80, C:K.88, C:R.91
- pi-Cation interactions: C:R.78, C:R.112
APC.13: 17 residues within 4Å:- Chain D: E.76, R.77, R.78, K.80, S.84, K.88, R.91, D.107, G.110, I.111, R.112, E.174, Q.176, H.190, Y.194
- Ligands: GTP.12, MG.14
14 PLIP interactions:14 interactions with chain D- Hydrogen bonds: D:R.78, D:S.84, D:S.84, D:I.111, D:R.112, D:R.112, D:Q.176
- Water bridges: D:K.88, D:D.107
- Salt bridges: D:K.80, D:K.88, D:R.91
- pi-Cation interactions: D:R.78, D:R.112
- 4 x MG: MAGNESIUM ION(Non-covalent)
MG.3: 5 residues within 4Å:- Chain A: K.80, K.88, D.107
- Ligands: GTP.1, APC.2
3 PLIP interactions:1 interactions with chain A, 2 Ligand-Water interactions- Metal complexes: A:D.107, H2O.1, H2O.1
MG.7: 5 residues within 4Å:- Chain B: K.80, K.88, D.107
- Ligands: GTP.5, APC.6
3 PLIP interactions:1 interactions with chain B, 2 Ligand-Water interactions- Metal complexes: B:D.107, H2O.3, H2O.3
MG.10: 5 residues within 4Å:- Chain C: K.80, K.88, D.107
- Ligands: GTP.8, APC.9
3 PLIP interactions:1 interactions with chain C, 2 Ligand-Water interactions- Metal complexes: C:D.107, H2O.5, H2O.5
MG.14: 5 residues within 4Å:- Chain D: K.80, K.88, D.107
- Ligands: GTP.12, APC.13
3 PLIP interactions:1 interactions with chain D, 2 Ligand-Water interactions- Metal complexes: D:D.107, H2O.7, H2O.7
- 2 x FE: FE (III) ION(Non-covalent)
FE.4: 2 residues within 4Å:- Chain A: E.51
- Chain B: E.51
5 PLIP interactions:1 interactions with chain B, 4 Ligand-Water interactions- Metal complexes: B:E.51, H2O.1, H2O.2, H2O.3, H2O.4
FE.11: 2 residues within 4Å:- Chain C: E.51
- Chain D: E.51
5 PLIP interactions:1 interactions with chain D, 4 Ligand-Water interactions- Metal complexes: D:E.51, H2O.5, H2O.6, H2O.7, H2O.7
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Manav, M.C. et al., Structural basis for (p)ppGpp synthesis by theStaphylococcus aureussmall alarmone synthetase RelP. J. Biol. Chem. (2018)
- Release Date
- 2018-01-24
- Peptides
- GTP pyrophosphokinase: ABCD
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
BC
AD
B
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.24 Å
- Oligo State
- homo-tetramer
- Ligands
- 4 x GTP: GUANOSINE-5'-TRIPHOSPHATE(Non-covalent)
- 4 x APC: DIPHOSPHOMETHYLPHOSPHONIC ACID ADENOSYL ESTER(Non-covalent)
- 4 x MG: MAGNESIUM ION(Non-covalent)
- 2 x FE: FE (III) ION(Non-covalent)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Manav, M.C. et al., Structural basis for (p)ppGpp synthesis by theStaphylococcus aureussmall alarmone synthetase RelP. J. Biol. Chem. (2018)
- Release Date
- 2018-01-24
- Peptides
- GTP pyrophosphokinase: ABCD
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
BC
AD
B