- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.31 Å
- Oligo State
- homo-hexamer
- Ligands
- 12 x MN: MANGANESE (II) ION(Non-covalent)
- 6 x CO3: CARBONATE ION(Non-functional Binders)
CO3.3: 9 residues within 4Å:- Chain A: M.79, R.87, H.90, H.92, E.96, L.148, F.150, Y.195
- Ligands: MN.1
1 PLIP interactions:1 interactions with chain A- Hydrogen bonds: A:R.87
CO3.10: 9 residues within 4Å:- Chain B: M.79, R.87, H.90, H.92, E.96, L.148, F.150, Y.195
- Ligands: MN.8
1 PLIP interactions:1 interactions with chain B- Hydrogen bonds: B:R.87
CO3.17: 9 residues within 4Å:- Chain C: M.79, R.87, H.90, H.92, E.96, L.148, F.150, Y.195
- Ligands: MN.15
1 PLIP interactions:1 interactions with chain C- Hydrogen bonds: C:R.87
CO3.24: 9 residues within 4Å:- Chain D: M.79, R.87, H.90, H.92, E.96, L.148, F.150, Y.195
- Ligands: MN.22
2 PLIP interactions:2 interactions with chain D- Hydrogen bonds: D:R.87, D:Y.195
CO3.31: 9 residues within 4Å:- Chain E: M.79, R.87, H.90, H.92, E.96, L.148, F.150, Y.195
- Ligands: MN.29
2 PLIP interactions:2 interactions with chain E- Hydrogen bonds: E:R.87, E:Y.195
CO3.38: 9 residues within 4Å:- Chain F: M.79, R.87, H.90, H.92, E.96, L.148, F.150, Y.195
- Ligands: MN.36
2 PLIP interactions:2 interactions with chain F- Hydrogen bonds: F:R.87, F:Y.195
- 18 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)
EDO.4: 1 residues within 4Å:- Chain A: Q.200
Ligand excluded by PLIPEDO.5: 5 residues within 4Å:- Chain A: P.171, E.173
- Chain B: R.7, P.33, E.34
Ligand excluded by PLIPEDO.6: 9 residues within 4Å:- Chain A: Q.25, N.26, K.44, K.283, A.284, N.299, Y.300, Q.301, I.319
Ligand excluded by PLIPEDO.11: 1 residues within 4Å:- Chain B: Q.200
Ligand excluded by PLIPEDO.12: 5 residues within 4Å:- Chain B: P.171, E.173
- Chain C: R.7, P.33, E.34
Ligand excluded by PLIPEDO.13: 9 residues within 4Å:- Chain B: Q.25, N.26, K.44, K.283, A.284, N.299, Y.300, Q.301, I.319
Ligand excluded by PLIPEDO.18: 1 residues within 4Å:- Chain C: Q.200
Ligand excluded by PLIPEDO.19: 5 residues within 4Å:- Chain A: R.7, P.33, E.34
- Chain C: P.171, E.173
Ligand excluded by PLIPEDO.20: 9 residues within 4Å:- Chain C: Q.25, N.26, K.44, K.283, A.284, N.299, Y.300, Q.301, I.319
Ligand excluded by PLIPEDO.25: 1 residues within 4Å:- Chain D: Q.200
Ligand excluded by PLIPEDO.26: 5 residues within 4Å:- Chain D: P.171, E.173
- Chain E: R.7, P.33, E.34
Ligand excluded by PLIPEDO.27: 9 residues within 4Å:- Chain D: Q.25, N.26, K.44, K.283, A.284, N.299, Y.300, Q.301, I.319
Ligand excluded by PLIPEDO.32: 1 residues within 4Å:- Chain E: Q.200
Ligand excluded by PLIPEDO.33: 5 residues within 4Å:- Chain E: P.171, E.173
- Chain F: R.7, P.33, E.34
Ligand excluded by PLIPEDO.34: 9 residues within 4Å:- Chain E: Q.25, N.26, K.44, K.283, A.284, N.299, Y.300, Q.301, I.319
Ligand excluded by PLIPEDO.39: 1 residues within 4Å:- Chain F: Q.200
Ligand excluded by PLIPEDO.40: 5 residues within 4Å:- Chain D: R.7, P.33, E.34
- Chain F: P.171, E.173
Ligand excluded by PLIPEDO.41: 9 residues within 4Å:- Chain F: Q.25, N.26, K.44, K.283, A.284, N.299, Y.300, Q.301, I.319
Ligand excluded by PLIP- 6 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)
PEG.7: 6 residues within 4Å:- Chain A: R.80, K.82
- Chain D: I.6, G.11, A.12, T.13
5 PLIP interactions:4 interactions with chain A, 1 interactions with chain D- Hydrogen bonds: A:R.80, A:R.80, D:T.13
- Water bridges: A:K.82, A:E.198
PEG.14: 6 residues within 4Å:- Chain B: R.80, K.82
- Chain F: I.6, G.11, A.12, T.13
5 PLIP interactions:1 interactions with chain F, 4 interactions with chain B- Hydrogen bonds: F:T.13, B:R.80, B:R.80
- Water bridges: B:K.82, B:E.198
PEG.21: 6 residues within 4Å:- Chain C: R.80, K.82
- Chain E: I.6, G.11, A.12, T.13
5 PLIP interactions:4 interactions with chain C, 1 interactions with chain E- Hydrogen bonds: C:R.80, C:R.80, E:T.13
- Water bridges: C:K.82, C:E.198
PEG.28: 6 residues within 4Å:- Chain A: I.6, G.11, A.12, T.13
- Chain D: R.80, K.82
5 PLIP interactions:3 interactions with chain D, 2 interactions with chain A- Hydrogen bonds: D:R.80, D:R.80, A:T.13
- Water bridges: D:K.82, A:G.11
PEG.35: 6 residues within 4Å:- Chain C: I.6, G.11, A.12, T.13
- Chain E: R.80, K.82
5 PLIP interactions:3 interactions with chain E, 2 interactions with chain C- Hydrogen bonds: E:R.80, E:R.80, C:T.13
- Water bridges: E:K.82, C:G.11
PEG.42: 6 residues within 4Å:- Chain B: I.6, G.11, A.12, T.13
- Chain F: R.80, K.82
5 PLIP interactions:3 interactions with chain F, 2 interactions with chain B- Hydrogen bonds: F:R.80, F:R.80, B:T.13
- Water bridges: F:K.82, B:G.11
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Saylor, B.T. et al., A structural element that facilitates proton-coupled electron transfer in oxalate decarboxylase. Biochemistry (2012)
- Release Date
- 2012-04-25
- Peptides
- Oxalate decarboxylase oxdC: ABCDEF
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
AC
AD
AE
AF
A
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.31 Å
- Oligo State
- homo-hexamer
- Ligands
- 12 x MN: MANGANESE (II) ION(Non-covalent)
- 6 x CO3: CARBONATE ION(Non-functional Binders)
- 18 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)
- 6 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Saylor, B.T. et al., A structural element that facilitates proton-coupled electron transfer in oxalate decarboxylase. Biochemistry (2012)
- Release Date
- 2012-04-25
- Peptides
- Oxalate decarboxylase oxdC: ABCDEF
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
AC
AD
AE
AF
A