- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.15 Å
- Oligo State
- homo-tetramer
- Ligands
- 4 x MG: MAGNESIUM ION(Non-covalent)
- 4 x TPP: THIAMINE DIPHOSPHATE(Non-covalent)
TPP.2: 24 residues within 4Å:- Chain A: T.383, G.384, D.385, G.408, H.409, I.410, G.434, D.435, G.436, S.437, L.440, N.462, G.464, Y.465, V.466, I.467, E.468
- Chain B: A.24, G.25, E.49, V.74, H.113
- Ligands: MG.1, EDO.3
20 PLIP interactions:20 interactions with chain A- Hydrophobic interactions: A:I.410, A:L.440, A:Y.465, A:Y.465, A:I.467
- Hydrogen bonds: A:D.385, A:G.408, A:I.410, A:G.434, A:G.436, A:S.437, A:N.462, A:V.466, A:I.467
- Water bridges: A:S.386, A:S.386, A:D.435, A:D.435, A:S.437, A:S.437
TPP.5: 23 residues within 4Å:- Chain A: A.24, G.25, E.49, V.74, H.113
- Chain B: G.384, D.385, G.408, H.409, I.410, G.434, D.435, G.436, S.437, L.440, N.462, G.464, Y.465, V.466, I.467, E.468
- Ligands: MG.4, EDO.6
19 PLIP interactions:19 interactions with chain B- Hydrophobic interactions: B:I.410, B:I.410, B:L.440, B:Y.465, B:Y.465, B:I.467
- Hydrogen bonds: B:D.385, B:G.408, B:I.410, B:G.434, B:G.436, B:S.437, B:N.462, B:V.466, B:I.467
- Water bridges: B:S.386, B:D.435, B:D.435, B:S.437
TPP.8: 23 residues within 4Å:- Chain C: T.383, G.384, D.385, G.408, H.409, I.410, G.434, D.435, G.436, S.437, L.440, N.462, G.464, Y.465, V.466, I.467, E.468
- Chain D: A.24, G.25, E.49, V.74, H.113
- Ligands: MG.7
19 PLIP interactions:18 interactions with chain C, 1 interactions with chain D- Hydrophobic interactions: C:I.410, C:L.440, C:Y.465, C:Y.465, C:I.467
- Hydrogen bonds: C:D.385, C:G.408, C:I.410, C:G.434, C:G.436, C:S.437, C:N.462, C:V.466, C:I.467
- Water bridges: C:S.386, C:D.435, C:D.435, C:S.437, D:E.49
TPP.10: 23 residues within 4Å:- Chain C: A.24, G.25, E.49, V.74, H.113
- Chain D: T.383, G.384, D.385, G.408, H.409, I.410, G.434, D.435, G.436, S.437, L.440, N.462, G.464, Y.465, V.466, I.467, E.468
- Ligands: MG.9
20 PLIP interactions:19 interactions with chain D, 1 interactions with chain C- Hydrophobic interactions: D:I.410, D:L.440, D:Y.465, D:Y.465, D:I.467
- Hydrogen bonds: D:D.385, D:G.408, D:I.410, D:G.434, D:G.436, D:S.437, D:N.462, D:V.466, D:I.467
- Water bridges: D:S.386, D:D.435, D:D.435, D:S.437, D:S.437, C:E.49
- 2 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)
EDO.3: 8 residues within 4Å:- Chain A: Y.289, T.383, I.467, E.468, I.471
- Chain B: D.26, H.113
- Ligands: TPP.2
3 PLIP interactions:1 interactions with chain A, 2 interactions with chain B- Hydrogen bonds: A:E.468, B:D.26
- Water bridges: B:D.26
EDO.6: 6 residues within 4Å:- Chain A: D.26, H.113
- Chain B: Y.289, E.468, I.471
- Ligands: TPP.5
3 PLIP interactions:2 interactions with chain A, 1 interactions with chain B- Hydrogen bonds: A:D.26, B:E.468
- Water bridges: A:Y.27
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Buddrus, L. et al., Crystal structure of pyruvate decarboxylase from Zymobacter palmae. Acta Crystallogr.,Sect.F (2016)
- Release Date
- 2016-09-14
- Peptides
- Pyruvate decarboxylase: ABCD
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
QB
RC
SD
T
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.15 Å
- Oligo State
- homo-tetramer
- Ligands
- 4 x MG: MAGNESIUM ION(Non-covalent)
- 4 x TPP: THIAMINE DIPHOSPHATE(Non-covalent)
- 2 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Buddrus, L. et al., Crystal structure of pyruvate decarboxylase from Zymobacter palmae. Acta Crystallogr.,Sect.F (2016)
- Release Date
- 2016-09-14
- Peptides
- Pyruvate decarboxylase: ABCD
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
QB
RC
SD
T