- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.60 Å
- Oligo State
- homo-tetramer
- Ligands
- 4 x NA: SODIUM ION(Non-functional Binders)
- 4 x K: POTASSIUM ION(Non-covalent)
K.2: 5 residues within 4Å:- Chain A: L.78, S.80, T.303, V.305, D.307
5 PLIP interactions:4 interactions with chain A, 1 Ligand-Water interactions- Metal complexes: A:S.80, A:T.303, A:V.305, A:D.307, H2O.2
K.6: 5 residues within 4Å:- Chain B: L.78, S.80, T.303, V.305, D.307
5 PLIP interactions:4 interactions with chain B, 1 Ligand-Water interactions- Metal complexes: B:S.80, B:T.303, B:V.305, B:D.307, H2O.7
K.10: 5 residues within 4Å:- Chain C: L.78, S.80, T.303, V.305, D.307
5 PLIP interactions:4 interactions with chain C, 1 Ligand-Water interactions- Metal complexes: C:S.80, C:T.303, C:V.305, C:D.307, H2O.13
K.14: 5 residues within 4Å:- Chain D: L.78, S.80, T.303, V.305, D.307
5 PLIP interactions:4 interactions with chain D, 1 Ligand-Water interactions- Metal complexes: D:S.80, D:T.303, D:V.305, D:D.307, H2O.18
- 4 x PLP: PYRIDOXAL-5'-PHOSPHATE(Covalent)
PLP.3: 14 residues within 4Å:- Chain A: T.110, G.111, A.112, N.115, W.138, H.139, E.210, D.243, A.245, Q.246, K.272
- Chain B: T.302, T.303
- Ligands: MES.4
17 PLIP interactions:12 interactions with chain A, 5 interactions with chain B- Hydrophobic interactions: A:E.210, A:A.245, A:K.272
- Hydrogen bonds: A:T.110, A:G.111, A:A.112, A:N.115, A:Q.246, B:T.303, B:T.303
- Water bridges: A:W.138, A:E.210, B:T.303, B:T.303, B:H.304
- Salt bridges: A:K.272
- pi-Stacking: A:W.138
PLP.7: 14 residues within 4Å:- Chain A: T.302, T.303
- Chain B: T.110, G.111, A.112, N.115, W.138, H.139, E.210, D.243, A.245, Q.246, K.272
- Ligands: MES.8
17 PLIP interactions:12 interactions with chain B, 5 interactions with chain A- Hydrophobic interactions: B:E.210, B:A.245, B:K.272
- Hydrogen bonds: B:G.111, B:A.112, B:N.115, B:Q.246, A:T.303, A:T.303, A:T.303
- Water bridges: B:T.110, B:W.138, B:E.210, A:T.302, A:H.304
- Salt bridges: B:K.272
- pi-Stacking: B:W.138
PLP.11: 14 residues within 4Å:- Chain C: T.110, G.111, A.112, N.115, W.138, H.139, E.210, D.243, A.245, Q.246, K.272
- Chain D: T.302, T.303
- Ligands: MES.12
17 PLIP interactions:12 interactions with chain C, 5 interactions with chain D- Hydrophobic interactions: C:E.210, C:A.245, C:K.272
- Hydrogen bonds: C:G.111, C:A.112, C:N.115, C:Q.246, D:T.303, D:T.303, D:T.303
- Water bridges: C:T.110, C:W.138, C:E.210, D:T.302, D:H.304
- Salt bridges: C:K.272
- pi-Stacking: C:W.138
PLP.15: 14 residues within 4Å:- Chain C: T.302, T.303
- Chain D: T.110, G.111, A.112, N.115, W.138, H.139, E.210, D.243, A.245, Q.246, K.272
- Ligands: MES.16
17 PLIP interactions:12 interactions with chain D, 5 interactions with chain C- Hydrophobic interactions: D:E.210, D:A.245, D:K.272
- Hydrogen bonds: D:T.110, D:G.111, D:A.112, D:N.115, D:Q.246, C:T.303, C:T.303
- Water bridges: D:W.138, D:E.210, C:T.303, C:T.303, C:H.304
- Salt bridges: D:K.272
- pi-Stacking: D:W.138
- 4 x MES: 2-(N-MORPHOLINO)-ETHANESULFONIC ACID(Non-covalent)
MES.4: 8 residues within 4Å:- Chain A: Q.52, W.138, S.215, Q.246, K.272, R.406
- Chain B: Y.301
- Ligands: PLP.3
9 PLIP interactions:8 interactions with chain A, 1 interactions with chain B- Hydrogen bonds: A:Q.52, A:S.215, A:Q.246
- Water bridges: A:S.215, A:R.406, B:Y.301
- Salt bridges: A:K.272, A:R.406
- pi-Cation interactions: A:W.138
MES.8: 8 residues within 4Å:- Chain A: Y.301
- Chain B: Q.52, W.138, S.215, Q.246, K.272, R.406
- Ligands: PLP.7
9 PLIP interactions:8 interactions with chain B, 1 interactions with chain A- Hydrogen bonds: B:Q.52, B:S.215, B:Q.246
- Water bridges: B:S.215, B:R.406, A:Y.301
- Salt bridges: B:K.272, B:R.406
- pi-Cation interactions: B:W.138
MES.12: 8 residues within 4Å:- Chain C: Q.52, W.138, S.215, Q.246, K.272, R.406
- Chain D: Y.301
- Ligands: PLP.11
9 PLIP interactions:8 interactions with chain C, 1 interactions with chain D- Hydrogen bonds: C:Q.52, C:S.215, C:Q.246
- Water bridges: C:S.215, C:R.406, D:Y.301
- Salt bridges: C:K.272, C:R.406
- pi-Cation interactions: C:W.138
MES.16: 8 residues within 4Å:- Chain C: Y.301
- Chain D: Q.52, W.138, S.215, Q.246, K.272, R.406
- Ligands: PLP.15
9 PLIP interactions:8 interactions with chain D, 1 interactions with chain C- Hydrogen bonds: D:Q.52, D:S.215, D:Q.246
- Water bridges: D:S.215, D:R.406, C:Y.301
- Salt bridges: D:K.272, D:R.406
- pi-Cation interactions: D:W.138
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Toney, M.D. et al., Dialkylglycine decarboxylase structure: bifunctional active site and alkali metal sites. Science (1993)
- Release Date
- 1994-10-15
- Peptides
- 2,2-DIALKYLGLYCINE DECARBOXYLASE (PYRUVATE): ABCD
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
AC
AD
A
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.60 Å
- Oligo State
- homo-tetramer
- Ligands
- 4 x NA: SODIUM ION(Non-functional Binders)
- 4 x K: POTASSIUM ION(Non-covalent)
- 4 x PLP: PYRIDOXAL-5'-PHOSPHATE(Covalent)
- 4 x MES: 2-(N-MORPHOLINO)-ETHANESULFONIC ACID(Non-covalent)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Toney, M.D. et al., Dialkylglycine decarboxylase structure: bifunctional active site and alkali metal sites. Science (1993)
- Release Date
- 1994-10-15
- Peptides
- 2,2-DIALKYLGLYCINE DECARBOXYLASE (PYRUVATE): ABCD
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
AC
AD
A