- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.28 Å
- Oligo State
- homo-dimer
- Ligands
- 4 x ZN: ZINC ION(Non-covalent)
- 4 x 5PN: 7-hydroxy-6-methylfuro[3,4-c]pyridin-3(1H)-one(Non-covalent)
5PN.3: 10 residues within 4Å:- Chain A: L.16, F.33, E.65, H.98, F.99, D.100, L.132, G.133, Y.210, F.223
9 PLIP interactions:9 interactions with chain A- Hydrophobic interactions: A:L.16, A:F.33, A:F.99
- Hydrogen bonds: A:D.100
- Salt bridges: A:H.98
- pi-Stacking: A:H.98, A:F.99, A:F.223, A:F.223
5PN.4: 9 residues within 4Å:- Chain A: D.10, G.12, S.13, I.68, E.70, Q.73, M.254, F.257, K.258
4 PLIP interactions:4 interactions with chain A- Hydrophobic interactions: A:I.68
- Hydrogen bonds: A:E.70, A:Q.73
- Salt bridges: A:K.258
5PN.13: 10 residues within 4Å:- Chain B: L.16, F.33, E.65, H.98, F.99, D.100, L.132, G.133, Y.210, F.223
10 PLIP interactions:10 interactions with chain B- Hydrophobic interactions: B:L.16, B:F.33, B:F.99
- Hydrogen bonds: B:D.100, B:Y.210
- Salt bridges: B:H.98
- pi-Stacking: B:H.98, B:F.99, B:F.223, B:F.223
5PN.14: 9 residues within 4Å:- Chain B: D.10, G.12, S.13, I.68, E.70, Q.73, M.254, F.257, K.258
4 PLIP interactions:4 interactions with chain B- Hydrophobic interactions: B:I.68
- Hydrogen bonds: B:E.70, B:Q.73
- Salt bridges: B:K.258
- 6 x GOL: GLYCEROL(Non-functional Binders)
GOL.5: 7 residues within 4Å:- Chain A: C.115, H.116, R.117, V.120, P.121, F.164, G.166
4 PLIP interactions:4 interactions with chain A- Hydrogen bonds: A:H.116, A:V.120
- Water bridges: A:E.142, A:F.164
GOL.6: 2 residues within 4Å:- Chain A: E.142, R.159
3 PLIP interactions:3 interactions with chain A- Hydrogen bonds: A:E.142, A:R.159, A:R.159
GOL.7: 8 residues within 4Å:- Chain A: F.22, V.31, R.32, F.33, T.211, H.252, D.253, M.254
3 PLIP interactions:3 interactions with chain A- Hydrogen bonds: A:R.32, A:H.252, A:M.254
GOL.15: 7 residues within 4Å:- Chain B: C.115, H.116, R.117, V.120, P.121, F.164, G.166
4 PLIP interactions:4 interactions with chain B- Hydrogen bonds: B:H.116, B:V.120
- Water bridges: B:E.142, B:F.164
GOL.16: 2 residues within 4Å:- Chain B: E.142, R.159
2 PLIP interactions:2 interactions with chain B- Hydrogen bonds: B:R.159, B:R.159
GOL.17: 8 residues within 4Å:- Chain B: F.22, V.31, R.32, F.33, T.211, H.252, D.253, M.254
4 PLIP interactions:4 interactions with chain B- Hydrogen bonds: B:R.32, B:H.252, B:D.253, B:M.254
- 6 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)
EDO.8: 6 residues within 4Å:- Chain A: D.54, H.57, K.106, D.136, S.138, Q.152
3 PLIP interactions:3 interactions with chain A- Hydrogen bonds: A:K.106, A:D.136, A:S.138
EDO.9: 2 residues within 4Å:- Chain A: R.32, M.254
1 PLIP interactions:1 interactions with chain A- Hydrogen bonds: A:R.32
EDO.10: 4 residues within 4Å:- Chain A: N.125, P.126, Q.127, P.128
2 PLIP interactions:2 interactions with chain A- Hydrogen bonds: A:N.125
- Water bridges: A:Q.122
EDO.18: 6 residues within 4Å:- Chain B: D.54, H.57, K.106, D.136, S.138, Q.152
3 PLIP interactions:3 interactions with chain B- Hydrogen bonds: B:K.106, B:D.136, B:S.138
EDO.19: 2 residues within 4Å:- Chain B: R.32, M.254
1 PLIP interactions:1 interactions with chain B- Hydrogen bonds: B:R.32
EDO.20: 4 residues within 4Å:- Chain B: N.125, P.126, Q.127, P.128
2 PLIP interactions:2 interactions with chain B- Hydrogen bonds: B:N.125
- Water bridges: B:Q.122
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Kobayashi, J. et al., Structure of 4-pyridoxolactonase from Mesorhizobium loti. Acta Crystallogr.,Sect.F (2014)
- Release Date
- 2014-04-09
- Peptides
- 4-pyridoxolactonase: AB
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
A
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.28 Å
- Oligo State
- homo-dimer
- Ligands
- 4 x ZN: ZINC ION(Non-covalent)
- 4 x 5PN: 7-hydroxy-6-methylfuro[3,4-c]pyridin-3(1H)-one(Non-covalent)
- 6 x GOL: GLYCEROL(Non-functional Binders)
- 6 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Kobayashi, J. et al., Structure of 4-pyridoxolactonase from Mesorhizobium loti. Acta Crystallogr.,Sect.F (2014)
- Release Date
- 2014-04-09
- Peptides
- 4-pyridoxolactonase: AB
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
A