- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.80 Å
- Oligo State
- homo-tetramer
- Ligands
- 4 x FBP: 1,6-di-O-phosphono-beta-D-fructofuranose(Non-covalent)
- 4 x PEP: PHOSPHOENOLPYRUVATE(Non-functional Binders)
PEP.2: 12 residues within 4Å:- Chain A: R.74, D.108, K.268, E.270, A.291, R.292, G.293, D.294, T.326, M.358
- Ligands: MG.3, K.4
11 PLIP interactions:11 interactions with chain A- Hydrophobic interactions: A:A.291
- Hydrogen bonds: A:N.76, A:D.108, A:E.270, A:G.293, A:D.294
- Water bridges: A:S.240, A:K.268, A:K.268
- Salt bridges: A:R.74, A:K.268
PEP.6: 12 residues within 4Å:- Chain B: R.74, K.268, E.270, M.289, A.291, R.292, G.293, D.294, T.326, M.358
- Ligands: MG.7, K.8
14 PLIP interactions:14 interactions with chain B- Hydrophobic interactions: B:A.291
- Hydrogen bonds: B:G.293, B:D.294, B:T.326, B:T.326
- Water bridges: B:N.76, B:N.76, B:E.113, B:E.113, B:E.113, B:K.268, B:K.268
- Salt bridges: B:R.74, B:K.268
PEP.10: 12 residues within 4Å:- Chain C: R.74, D.108, K.268, E.270, A.291, R.292, G.293, D.294, T.326, M.358
- Ligands: MG.11, K.12
14 PLIP interactions:14 interactions with chain C- Hydrophobic interactions: C:A.291
- Hydrogen bonds: C:G.293, C:D.294, C:T.326, C:T.326
- Water bridges: C:N.76, C:S.78, C:S.78, C:E.113, C:K.268, C:K.268, C:T.326
- Salt bridges: C:R.74, C:K.268
PEP.14: 12 residues within 4Å:- Chain D: R.74, K.268, E.270, M.289, A.291, R.292, G.293, D.294, T.326, M.358
- Ligands: MG.15, K.16
8 PLIP interactions:8 interactions with chain D- Hydrophobic interactions: D:A.291
- Hydrogen bonds: D:G.293, D:D.294, D:D.294
- Water bridges: D:K.268, D:K.268
- Salt bridges: D:R.74, D:K.268
- 4 x MG: MAGNESIUM ION(Non-covalent)
MG.3: 3 residues within 4Å:- Chain A: E.270, D.294
- Ligands: PEP.2
4 PLIP interactions:2 interactions with chain A, 1 Ligand-Ligand interactions, 1 Ligand-Water interactions- Metal complexes: A:E.270, A:D.294, PEP.2, H2O.3
MG.7: 3 residues within 4Å:- Chain B: E.270, D.294
- Ligands: PEP.6
3 PLIP interactions:2 interactions with chain B, 1 Ligand-Water interactions- Metal complexes: B:E.270, B:D.294, H2O.13
MG.11: 3 residues within 4Å:- Chain C: E.270, D.294
- Ligands: PEP.10
4 PLIP interactions:2 interactions with chain C, 1 Ligand-Ligand interactions, 1 Ligand-Water interactions- Metal complexes: C:E.270, C:D.294, PEP.10, H2O.26
MG.15: 3 residues within 4Å:- Chain D: E.270, D.294
- Ligands: PEP.14
4 PLIP interactions:2 interactions with chain D, 1 Ligand-Ligand interactions, 1 Ligand-Water interactions- Metal complexes: D:E.270, D:D.294, PEP.14, H2O.38
- 4 x K: POTASSIUM ION(Non-covalent)
K.4: 7 residues within 4Å:- Chain A: N.76, S.78, D.108, T.109, S.240, K.268
- Ligands: PEP.2
4 PLIP interactions:3 interactions with chain A, 1 Ligand-Water interactions- Metal complexes: A:S.78, A:D.108, A:T.109, H2O.5
K.8: 7 residues within 4Å:- Chain B: N.76, S.78, D.108, T.109, S.240, K.268
- Ligands: PEP.6
3 PLIP interactions:3 interactions with chain B- Metal complexes: B:S.78, B:D.108, B:T.109
K.12: 7 residues within 4Å:- Chain C: N.76, S.78, D.108, T.109, S.240, K.268
- Ligands: PEP.10
4 PLIP interactions:3 interactions with chain C, 1 Ligand-Water interactions- Metal complexes: C:S.78, C:D.108, C:T.109, H2O.26
K.16: 7 residues within 4Å:- Chain D: N.76, S.78, D.108, T.109, S.240, K.268
- Ligands: PEP.14
3 PLIP interactions:3 interactions with chain D- Metal complexes: D:S.78, D:D.108, D:T.109
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Taguchi, A. et al., Functional and structural characterization of Streptococcus pneumoniae pyruvate kinase involved in fosfomycin resistance. J.Biol.Chem. (2023)
- Release Date
- 2023-06-14
- Peptides
- Pyruvate kinase: ABCD
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
EB
FC
GD
H
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.80 Å
- Oligo State
- homo-tetramer
- Ligands
- 4 x FBP: 1,6-di-O-phosphono-beta-D-fructofuranose(Non-covalent)
- 4 x PEP: PHOSPHOENOLPYRUVATE(Non-functional Binders)
- 4 x MG: MAGNESIUM ION(Non-covalent)
- 4 x K: POTASSIUM ION(Non-covalent)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Taguchi, A. et al., Functional and structural characterization of Streptococcus pneumoniae pyruvate kinase involved in fosfomycin resistance. J.Biol.Chem. (2023)
- Release Date
- 2023-06-14
- Peptides
- Pyruvate kinase: ABCD
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
EB
FC
GD
H