- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.00 Å
- Oligo State
- homo-octamer
- Ligands
- 24 x SO4: SULFATE ION(Non-functional Binders)
- 24 x ZN: ZINC ION(Non-covalent)
ZN.4: 2 residues within 4Å:- Chain A: E.39, H.83
3 PLIP interactions:3 interactions with chain A- Metal complexes: A:E.39, A:E.39, A:H.83
ZN.5: 3 residues within 4Å:- Chain A: C.119, C.121, C.129
4 PLIP interactions:3 interactions with chain A, 1 Ligand-Water interactions- Metal complexes: A:C.119, A:C.121, A:C.129, H2O.15
ZN.6: 2 residues within 4Å:- Chain A: E.231, D.235
6 PLIP interactions:1 interactions with chain A, 5 Ligand-Water interactions- Metal complexes: A:E.231, H2O.8, H2O.8, H2O.8, H2O.15, H2O.15
ZN.14: 2 residues within 4Å:- Chain B: E.39, H.83
3 PLIP interactions:3 interactions with chain B- Metal complexes: B:E.39, B:E.39, B:H.83
ZN.15: 3 residues within 4Å:- Chain B: C.119, C.121, C.129
4 PLIP interactions:3 interactions with chain B, 1 Ligand-Water interactions- Metal complexes: B:C.119, B:C.121, B:C.129, H2O.29
ZN.16: 2 residues within 4Å:- Chain B: E.231, D.235
6 PLIP interactions:1 interactions with chain B, 5 Ligand-Water interactions- Metal complexes: B:E.231, H2O.22, H2O.22, H2O.22, H2O.29, H2O.29
ZN.24: 2 residues within 4Å:- Chain C: E.39, H.83
3 PLIP interactions:3 interactions with chain C- Metal complexes: C:E.39, C:E.39, C:H.83
ZN.25: 3 residues within 4Å:- Chain C: C.119, C.121, C.129
4 PLIP interactions:3 interactions with chain C, 1 Ligand-Water interactions- Metal complexes: C:C.119, C:C.121, C:C.129, H2O.43
ZN.26: 2 residues within 4Å:- Chain C: E.231, D.235
6 PLIP interactions:1 interactions with chain C, 5 Ligand-Water interactions- Metal complexes: C:E.231, H2O.37, H2O.37, H2O.37, H2O.43, H2O.43
ZN.34: 2 residues within 4Å:- Chain D: E.39, H.83
3 PLIP interactions:3 interactions with chain D- Metal complexes: D:E.39, D:E.39, D:H.83
ZN.35: 3 residues within 4Å:- Chain D: C.119, C.121, C.129
4 PLIP interactions:3 interactions with chain D, 1 Ligand-Water interactions- Metal complexes: D:C.119, D:C.121, D:C.129, H2O.57
ZN.36: 2 residues within 4Å:- Chain D: E.231, D.235
6 PLIP interactions:1 interactions with chain D, 5 Ligand-Water interactions- Metal complexes: D:E.231, H2O.51, H2O.51, H2O.51, H2O.58, H2O.58
ZN.44: 2 residues within 4Å:- Chain E: E.39, H.83
3 PLIP interactions:3 interactions with chain E- Metal complexes: E:E.39, E:E.39, E:H.83
ZN.45: 3 residues within 4Å:- Chain E: C.119, C.121, C.129
4 PLIP interactions:3 interactions with chain E, 1 Ligand-Water interactions- Metal complexes: E:C.119, E:C.121, E:C.129, H2O.72
ZN.46: 2 residues within 4Å:- Chain E: E.231, D.235
6 PLIP interactions:1 interactions with chain E, 5 Ligand-Water interactions- Metal complexes: E:E.231, H2O.65, H2O.65, H2O.65, H2O.72, H2O.72
ZN.54: 2 residues within 4Å:- Chain F: E.39, H.83
3 PLIP interactions:3 interactions with chain F- Metal complexes: F:E.39, F:E.39, F:H.83
ZN.55: 3 residues within 4Å:- Chain F: C.119, C.121, C.129
4 PLIP interactions:3 interactions with chain F, 1 Ligand-Water interactions- Metal complexes: F:C.119, F:C.121, F:C.129, H2O.86
ZN.56: 2 residues within 4Å:- Chain F: E.231, D.235
6 PLIP interactions:1 interactions with chain F, 5 Ligand-Water interactions- Metal complexes: F:E.231, H2O.79, H2O.79, H2O.79, H2O.86, H2O.86
ZN.64: 2 residues within 4Å:- Chain G: E.39, H.83
3 PLIP interactions:3 interactions with chain G- Metal complexes: G:E.39, G:E.39, G:H.83
ZN.65: 3 residues within 4Å:- Chain G: C.119, C.121, C.129
4 PLIP interactions:3 interactions with chain G, 1 Ligand-Water interactions- Metal complexes: G:C.119, G:C.121, G:C.129, H2O.100
ZN.66: 2 residues within 4Å:- Chain G: E.231, D.235
6 PLIP interactions:1 interactions with chain G, 5 Ligand-Water interactions- Metal complexes: G:E.231, H2O.94, H2O.94, H2O.94, H2O.100, H2O.100
ZN.74: 2 residues within 4Å:- Chain H: E.39, H.83
3 PLIP interactions:3 interactions with chain H- Metal complexes: H:E.39, H:E.39, H:H.83
ZN.75: 3 residues within 4Å:- Chain H: C.119, C.121, C.129
4 PLIP interactions:3 interactions with chain H, 1 Ligand-Water interactions- Metal complexes: H:C.119, H:C.121, H:C.129, H2O.115
ZN.76: 2 residues within 4Å:- Chain H: E.231, D.235
6 PLIP interactions:1 interactions with chain H, 5 Ligand-Water interactions- Metal complexes: H:E.231, H2O.108, H2O.108, H2O.108, H2O.115, H2O.115
- 8 x SHF: LAEVULINIC ACID(Covalent)
SHF.7: 11 residues within 4Å:- Chain A: F.78, Y.191, K.194, F.199, Y.200, F.203, K.246, Y.269, V.271, S.272, Y.311
12 PLIP interactions:12 interactions with chain A- Hydrophobic interactions: A:F.78, A:Y.191, A:Y.200, A:F.203, A:F.203, A:F.203, A:K.246, A:Y.269
- Hydrogen bonds: A:Y.200, A:S.272, A:Y.311
- Salt bridges: A:K.246
SHF.17: 11 residues within 4Å:- Chain B: F.78, Y.191, K.194, F.199, Y.200, F.203, K.246, Y.269, V.271, S.272, Y.311
12 PLIP interactions:12 interactions with chain B- Hydrophobic interactions: B:F.78, B:Y.191, B:Y.200, B:F.203, B:F.203, B:F.203, B:K.246, B:Y.269
- Hydrogen bonds: B:Y.200, B:S.272, B:Y.311
- Salt bridges: B:K.246
SHF.27: 11 residues within 4Å:- Chain C: F.78, Y.191, K.194, F.199, Y.200, F.203, K.246, Y.269, V.271, S.272, Y.311
12 PLIP interactions:12 interactions with chain C- Hydrophobic interactions: C:F.78, C:Y.191, C:Y.200, C:F.203, C:F.203, C:F.203, C:K.246, C:Y.269
- Hydrogen bonds: C:Y.200, C:S.272, C:Y.311
- Salt bridges: C:K.246
SHF.37: 11 residues within 4Å:- Chain D: F.78, Y.191, K.194, F.199, Y.200, F.203, K.246, Y.269, V.271, S.272, Y.311
12 PLIP interactions:12 interactions with chain D- Hydrophobic interactions: D:F.78, D:Y.191, D:Y.200, D:F.203, D:F.203, D:F.203, D:K.246, D:Y.269
- Hydrogen bonds: D:Y.200, D:S.272, D:Y.311
- Salt bridges: D:K.246
SHF.47: 11 residues within 4Å:- Chain E: F.78, Y.191, K.194, F.199, Y.200, F.203, K.246, Y.269, V.271, S.272, Y.311
11 PLIP interactions:11 interactions with chain E- Hydrophobic interactions: E:F.78, E:Y.191, E:Y.200, E:F.203, E:F.203, E:F.203, E:K.246, E:Y.269
- Hydrogen bonds: E:Y.200, E:S.272
- Salt bridges: E:K.246
SHF.57: 11 residues within 4Å:- Chain F: F.78, Y.191, K.194, F.199, Y.200, F.203, K.246, Y.269, V.271, S.272, Y.311
11 PLIP interactions:11 interactions with chain F- Hydrophobic interactions: F:F.78, F:Y.191, F:Y.200, F:F.203, F:F.203, F:F.203, F:K.246, F:Y.269
- Hydrogen bonds: F:Y.200, F:S.272
- Salt bridges: F:K.246
SHF.67: 11 residues within 4Å:- Chain G: F.78, Y.191, K.194, F.199, Y.200, F.203, K.246, Y.269, V.271, S.272, Y.311
11 PLIP interactions:11 interactions with chain G- Hydrophobic interactions: G:F.78, G:Y.191, G:Y.200, G:F.203, G:F.203, G:F.203, G:K.246, G:Y.269
- Hydrogen bonds: G:Y.200, G:S.272
- Salt bridges: G:K.246
SHF.77: 11 residues within 4Å:- Chain H: F.78, Y.191, K.194, F.199, Y.200, F.203, K.246, Y.269, V.271, S.272, Y.311
11 PLIP interactions:11 interactions with chain H- Hydrophobic interactions: H:F.78, H:Y.191, H:Y.200, H:F.203, H:F.203, H:F.203, H:K.246, H:Y.269
- Hydrogen bonds: H:Y.200, H:S.272
- Salt bridges: H:K.246
- 24 x GOL: GLYCEROL(Non-functional Binders)
GOL.8: 7 residues within 4Å:- Chain A: G.249, E.274, I.278, S.296
- Chain G: F.199, M.277
- Ligands: GOL.68
Ligand excluded by PLIPGOL.9: 4 residues within 4Å:- Chain A: E.21, L.294, E.295
- Chain G: M.223
Ligand excluded by PLIPGOL.10: 4 residues within 4Å:- Chain A: E.94, A.155, A.181, F.183
Ligand excluded by PLIPGOL.18: 7 residues within 4Å:- Chain B: G.249, E.274, I.278, S.296
- Chain H: F.199, M.277
- Ligands: GOL.78
Ligand excluded by PLIPGOL.19: 4 residues within 4Å:- Chain B: E.21, L.294, E.295
- Chain H: M.223
Ligand excluded by PLIPGOL.20: 4 residues within 4Å:- Chain B: E.94, A.155, A.181, F.183
Ligand excluded by PLIPGOL.28: 7 residues within 4Å:- Chain C: G.249, E.274, I.278, S.296
- Chain E: F.199, M.277
- Ligands: GOL.48
Ligand excluded by PLIPGOL.29: 4 residues within 4Å:- Chain C: E.21, L.294, E.295
- Chain E: M.223
Ligand excluded by PLIPGOL.30: 4 residues within 4Å:- Chain C: E.94, A.155, A.181, F.183
Ligand excluded by PLIPGOL.38: 7 residues within 4Å:- Chain D: G.249, E.274, I.278, S.296
- Chain F: F.199, M.277
- Ligands: GOL.58
Ligand excluded by PLIPGOL.39: 4 residues within 4Å:- Chain D: E.21, L.294, E.295
- Chain F: M.223
Ligand excluded by PLIPGOL.40: 4 residues within 4Å:- Chain D: E.94, A.155, A.181, F.183
Ligand excluded by PLIPGOL.48: 7 residues within 4Å:- Chain C: F.199, M.277
- Chain E: G.249, E.274, I.278, S.296
- Ligands: GOL.28
Ligand excluded by PLIPGOL.49: 4 residues within 4Å:- Chain C: M.223
- Chain E: E.21, L.294, E.295
Ligand excluded by PLIPGOL.50: 4 residues within 4Å:- Chain E: E.94, A.155, A.181, F.183
Ligand excluded by PLIPGOL.58: 7 residues within 4Å:- Chain D: F.199, M.277
- Chain F: G.249, E.274, I.278, S.296
- Ligands: GOL.38
Ligand excluded by PLIPGOL.59: 4 residues within 4Å:- Chain D: M.223
- Chain F: E.21, L.294, E.295
Ligand excluded by PLIPGOL.60: 4 residues within 4Å:- Chain F: E.94, A.155, A.181, F.183
Ligand excluded by PLIPGOL.68: 7 residues within 4Å:- Chain A: F.199, M.277
- Chain G: G.249, E.274, I.278, S.296
- Ligands: GOL.8
Ligand excluded by PLIPGOL.69: 4 residues within 4Å:- Chain A: M.223
- Chain G: E.21, L.294, E.295
Ligand excluded by PLIPGOL.70: 4 residues within 4Å:- Chain G: E.94, A.155, A.181, F.183
Ligand excluded by PLIPGOL.78: 7 residues within 4Å:- Chain B: F.199, M.277
- Chain H: G.249, E.274, I.278, S.296
- Ligands: GOL.18
Ligand excluded by PLIPGOL.79: 4 residues within 4Å:- Chain B: M.223
- Chain H: E.21, L.294, E.295
Ligand excluded by PLIPGOL.80: 4 residues within 4Å:- Chain H: E.94, A.155, A.181, F.183
Ligand excluded by PLIP- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Erskine, P.T. et al., X-ray structure of 5-aminolevulinic acid dehydratase from Escherichia coli complexed with the inhibitor levulinic acid at 2.0 A resolution. Biochemistry (1999)
- Release Date
- 1999-12-17
- Peptides
- PROTEIN (5-AMINOLEVULINIC ACID DEHYDRATASE): ABCDEFGH
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
AC
AD
AE
AF
AG
AH
A
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.00 Å
- Oligo State
- homo-octamer
- Ligands
- 24 x SO4: SULFATE ION(Non-functional Binders)
- 24 x ZN: ZINC ION(Non-covalent)
- 8 x SHF: LAEVULINIC ACID(Covalent)
- 24 x GOL: GLYCEROL(Non-functional Binders)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Erskine, P.T. et al., X-ray structure of 5-aminolevulinic acid dehydratase from Escherichia coli complexed with the inhibitor levulinic acid at 2.0 A resolution. Biochemistry (1999)
- Release Date
- 1999-12-17
- Peptides
- PROTEIN (5-AMINOLEVULINIC ACID DEHYDRATASE): ABCDEFGH
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
AC
AD
AE
AF
AG
AH
A