- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.10 Å
- Oligo State
- homo-octamer
- Ligands
- 8 x MG: MAGNESIUM ION(Non-covalent)
- 10 x CL: CHLORIDE ION(Non-functional Binders)
CL.2: 6 residues within 4Å:- Chain A: D.10, T.54, G.55, E.56, K.80, N.106
Ligand excluded by PLIPCL.3: 5 residues within 4Å:- Chain A: F.21
- Chain B: F.21
- Chain C: F.21
- Chain D: F.21
- Ligands: PG4.8
Ligand excluded by PLIPCL.13: 6 residues within 4Å:- Chain B: D.10, T.54, G.55, E.56, K.80, N.106
Ligand excluded by PLIPCL.20: 6 residues within 4Å:- Chain C: D.10, T.54, G.55, E.56, K.80, N.106
Ligand excluded by PLIPCL.26: 6 residues within 4Å:- Chain D: D.10, T.54, G.55, E.56, K.80, N.106
Ligand excluded by PLIPCL.34: 6 residues within 4Å:- Chain E: D.10, T.54, G.55, E.56, K.80, N.106
Ligand excluded by PLIPCL.35: 5 residues within 4Å:- Chain E: F.21
- Chain F: F.21
- Chain G: F.21
- Chain H: F.21
- Ligands: PG4.40
Ligand excluded by PLIPCL.45: 6 residues within 4Å:- Chain F: D.10, T.54, G.55, E.56, K.80, N.106
Ligand excluded by PLIPCL.52: 6 residues within 4Å:- Chain G: D.10, T.54, G.55, E.56, K.80, N.106
Ligand excluded by PLIPCL.58: 6 residues within 4Å:- Chain H: D.10, T.54, G.55, E.56, K.80, N.106
Ligand excluded by PLIP- 12 x ACY: ACETIC ACID(Non-functional Binders)
ACY.4: 8 residues within 4Å:- Chain A: T.34, S.37, R.64, K.67, L.68
- Chain C: M.20, Y.22, E.56
4 PLIP interactions:4 interactions with chain A- Hydrogen bonds: A:T.34
- Water bridges: A:K.67
- Salt bridges: A:R.64, A:K.67
ACY.5: 7 residues within 4Å:- Chain A: F.125, R.128, R.129
- Chain F: F.125, R.128, R.129, F.134
7 PLIP interactions:5 interactions with chain A, 2 interactions with chain F- Hydrophobic interactions: A:R.129
- Water bridges: A:R.128, A:R.128, A:R.128, F:R.128
- Salt bridges: A:R.128, F:R.128
ACY.14: 8 residues within 4Å:- Chain A: M.20, Y.22, E.56
- Chain B: T.34, S.37, R.64, K.67, L.68
5 PLIP interactions:5 interactions with chain B- Hydrogen bonds: B:T.34, B:T.34
- Water bridges: B:K.67
- Salt bridges: B:R.64, B:K.67
ACY.21: 8 residues within 4Å:- Chain C: T.34, S.37, R.64, K.67, L.68
- Chain D: M.20, Y.22, E.56
5 PLIP interactions:5 interactions with chain C- Hydrogen bonds: C:T.34, C:T.34
- Water bridges: C:K.67
- Salt bridges: C:R.64, C:K.67
ACY.27: 7 residues within 4Å:- Chain B: M.20, E.56
- Chain D: T.34, S.37, R.64, K.67, L.68
5 PLIP interactions:5 interactions with chain D- Hydrogen bonds: D:T.34, D:S.37
- Water bridges: D:K.67
- Salt bridges: D:R.64, D:K.67
ACY.28: 7 residues within 4Å:- Chain D: F.125, R.128, R.129
- Chain G: F.125, R.128, R.129, F.134
7 PLIP interactions:3 interactions with chain D, 4 interactions with chain G- Hydrophobic interactions: D:R.129
- Water bridges: D:R.128, G:R.128, G:R.128, G:R.128
- Salt bridges: D:R.128, G:R.128
ACY.36: 8 residues within 4Å:- Chain E: T.34, S.37, R.64, K.67, L.68
- Chain G: M.20, Y.22, E.56
4 PLIP interactions:4 interactions with chain E- Hydrogen bonds: E:T.34
- Water bridges: E:K.67
- Salt bridges: E:R.64, E:K.67
ACY.37: 7 residues within 4Å:- Chain B: F.125, R.128, R.129, F.134
- Chain E: F.125, R.128, R.129
7 PLIP interactions:5 interactions with chain E, 2 interactions with chain B- Hydrophobic interactions: E:R.129
- Water bridges: E:R.128, E:R.128, E:R.128, B:R.128
- Salt bridges: E:R.128, B:R.128
ACY.46: 8 residues within 4Å:- Chain E: M.20, Y.22, E.56
- Chain F: T.34, S.37, R.64, K.67, L.68
5 PLIP interactions:5 interactions with chain F- Hydrogen bonds: F:T.34, F:T.34
- Water bridges: F:K.67
- Salt bridges: F:R.64, F:K.67
ACY.53: 8 residues within 4Å:- Chain G: T.34, S.37, R.64, K.67, L.68
- Chain H: M.20, Y.22, E.56
5 PLIP interactions:5 interactions with chain G- Hydrogen bonds: G:T.34, G:T.34
- Water bridges: G:K.67
- Salt bridges: G:R.64, G:K.67
ACY.59: 7 residues within 4Å:- Chain F: M.20, E.56
- Chain H: T.34, S.37, R.64, K.67, L.68
5 PLIP interactions:5 interactions with chain H- Hydrogen bonds: H:T.34, H:S.37
- Water bridges: H:K.67
- Salt bridges: H:R.64, H:K.67
ACY.60: 7 residues within 4Å:- Chain C: F.125, R.128, R.129, F.134
- Chain H: F.125, R.128, R.129
7 PLIP interactions:3 interactions with chain H, 4 interactions with chain C- Hydrophobic interactions: H:R.129
- Water bridges: H:R.128, C:R.128, C:R.128, C:R.128
- Salt bridges: H:R.128, C:R.128
- 8 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)
PEG.6: 5 residues within 4Å:- Chain A: H.44, G.47, I.48, P.49, D.71
2 PLIP interactions:2 interactions with chain A- Water bridges: A:G.47, A:D.71
PEG.7: 6 residues within 4Å:- Chain A: Y.72, F.74, A.83, E.86, L.87, E.90
1 PLIP interactions:1 interactions with chain A- Hydrogen bonds: A:L.87
PEG.15: 5 residues within 4Å:- Chain B: H.44, G.47, I.48, P.49, D.71
1 PLIP interactions:1 interactions with chain B- Water bridges: B:D.71
PEG.22: 5 residues within 4Å:- Chain C: H.44, G.47, I.48, P.49, D.71
1 PLIP interactions:1 interactions with chain C- Water bridges: C:G.47
PEG.38: 5 residues within 4Å:- Chain E: H.44, G.47, I.48, P.49, D.71
2 PLIP interactions:2 interactions with chain E- Water bridges: E:G.47, E:D.71
PEG.39: 6 residues within 4Å:- Chain E: Y.72, F.74, A.83, E.86, L.87, E.90
1 PLIP interactions:1 interactions with chain E- Hydrogen bonds: E:L.87
PEG.47: 5 residues within 4Å:- Chain F: H.44, G.47, I.48, P.49, D.71
1 PLIP interactions:1 interactions with chain F- Water bridges: F:D.71
PEG.54: 5 residues within 4Å:- Chain G: H.44, G.47, I.48, P.49, D.71
1 PLIP interactions:1 interactions with chain G- Water bridges: G:G.47
- 2 x PG4: TETRAETHYLENE GLYCOL(Non-functional Binders)
PG4.8: 16 residues within 4Å:- Chain A: D.17, K.31, G.139, G.140
- Chain B: D.17, K.31
- Chain C: D.17, K.31
- Chain D: D.17, K.31, N.33, G.139, G.140, E.141
- Ligands: CL.3, EDO.16
6 PLIP interactions:2 interactions with chain D, 1 interactions with chain B, 2 interactions with chain A, 1 interactions with chain C- Hydrogen bonds: D:K.31, D:G.140, B:K.31, A:K.31, A:G.140, C:K.31
PG4.40: 16 residues within 4Å:- Chain E: D.17, K.31, G.139, G.140
- Chain F: D.17, K.31
- Chain G: D.17, K.31
- Chain H: D.17, K.31, N.33, G.139, G.140, E.141
- Ligands: CL.35, EDO.48
6 PLIP interactions:2 interactions with chain E, 1 interactions with chain G, 1 interactions with chain F, 2 interactions with chain H- Hydrogen bonds: E:K.31, E:G.140, G:K.31, F:K.31, H:K.31, H:G.140
- 22 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)
EDO.9: 6 residues within 4Å:- Chain A: P.124, F.125, Y.126, R.128
- Chain B: E.149
- Chain F: F.134
Ligand excluded by PLIPEDO.10: 5 residues within 4Å:- Chain A: L.156, F.159, I.160, I.163
- Chain C: K.112
Ligand excluded by PLIPEDO.11: 4 residues within 4Å:- Chain A: M.1, I.133, F.134, K.150
Ligand excluded by PLIPEDO.16: 9 residues within 4Å:- Chain A: D.17
- Chain B: D.17, K.31, N.33, G.139, G.140, E.141
- Chain D: K.31
- Ligands: PG4.8
Ligand excluded by PLIPEDO.17: 5 residues within 4Å:- Chain B: A.65, E.66, K.67, K.69, V.70
Ligand excluded by PLIPEDO.18: 4 residues within 4Å:- Chain A: K.112
- Chain B: I.160, I.163, Q.164
Ligand excluded by PLIPEDO.23: 7 residues within 4Å:- Chain C: K.5, L.6, G.47, I.48, P.49, L.91, I.93
Ligand excluded by PLIPEDO.24: 2 residues within 4Å:- Chain C: E.59, R.62
Ligand excluded by PLIPEDO.30: 5 residues within 4Å:- Chain C: F.41, V.162, I.163
- Chain D: L.105, N.106
Ligand excluded by PLIPEDO.31: 6 residues within 4Å:- Chain D: R.145, E.146, F.147, E.149, K.150
- Ligands: EDO.32
Ligand excluded by PLIPEDO.32: 8 residues within 4Å:- Chain B: P.124, F.125, Y.126
- Chain D: K.137, R.145, E.146, E.149
- Ligands: EDO.31
Ligand excluded by PLIPEDO.41: 6 residues within 4Å:- Chain B: F.134
- Chain E: P.124, F.125, Y.126, R.128
- Chain F: E.149
Ligand excluded by PLIPEDO.42: 5 residues within 4Å:- Chain E: L.156, F.159, I.160, I.163
- Chain G: K.112
Ligand excluded by PLIPEDO.43: 4 residues within 4Å:- Chain E: M.1, I.133, F.134, K.150
Ligand excluded by PLIPEDO.48: 9 residues within 4Å:- Chain E: D.17
- Chain F: D.17, K.31, N.33, G.139, G.140, E.141
- Chain H: K.31
- Ligands: PG4.40
Ligand excluded by PLIPEDO.49: 5 residues within 4Å:- Chain F: A.65, E.66, K.67, K.69, V.70
Ligand excluded by PLIPEDO.50: 4 residues within 4Å:- Chain E: K.112
- Chain F: I.160, I.163, Q.164
Ligand excluded by PLIPEDO.55: 7 residues within 4Å:- Chain G: K.5, L.6, G.47, I.48, P.49, L.91, I.93
Ligand excluded by PLIPEDO.56: 2 residues within 4Å:- Chain G: E.59, R.62
Ligand excluded by PLIPEDO.62: 5 residues within 4Å:- Chain G: F.41, V.162, I.163
- Chain H: L.105, N.106
Ligand excluded by PLIPEDO.63: 6 residues within 4Å:- Chain H: R.145, E.146, F.147, E.149, K.150
- Ligands: EDO.64
Ligand excluded by PLIPEDO.64: 8 residues within 4Å:- Chain F: P.124, F.125, Y.126
- Chain H: K.137, R.145, E.146, E.149
- Ligands: EDO.63
Ligand excluded by PLIP- 2 x PGE: TRIETHYLENE GLYCOL(Non-functional Binders)
PGE.29: 12 residues within 4Å:- Chain B: Q.24
- Chain C: R.63, K.67
- Chain D: Y.22, D.23, T.25, G.26, N.27, E.28, E.56, K.57, T.58
5 PLIP interactions:5 interactions with chain D- Hydrogen bonds: D:D.23, D:G.26, D:N.27, D:K.57
- Water bridges: D:K.57
PGE.61: 12 residues within 4Å:- Chain F: Q.24
- Chain G: R.63, K.67
- Chain H: Y.22, D.23, T.25, G.26, N.27, E.28, E.56, K.57, T.58
5 PLIP interactions:5 interactions with chain H- Hydrogen bonds: H:D.23, H:G.26, H:N.27, H:K.57
- Water bridges: H:K.57
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Lu, Z. et al., Structure-Function Analysis of 2-Keto-3-deoxy-D-glycero-D-galactonononate-9-phosphate Phosphatase Defines Specificity Elements in Type C0 Haloalkanoate Dehalogenase Family Members. J.Biol.Chem. (2009)
- Release Date
- 2008-11-04
- Peptides
- Acylneuraminate cytidylyltransferase: ABCDEFGH
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
BC
CD
DE
AF
BG
CH
D
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.10 Å
- Oligo State
- homo-octamer
- Ligands
- 8 x MG: MAGNESIUM ION(Non-covalent)
- 10 x CL: CHLORIDE ION(Non-functional Binders)
- 12 x ACY: ACETIC ACID(Non-functional Binders)
- 8 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)
- 2 x PG4: TETRAETHYLENE GLYCOL(Non-functional Binders)
- 22 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)
- 2 x PGE: TRIETHYLENE GLYCOL(Non-functional Binders)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Lu, Z. et al., Structure-Function Analysis of 2-Keto-3-deoxy-D-glycero-D-galactonononate-9-phosphate Phosphatase Defines Specificity Elements in Type C0 Haloalkanoate Dehalogenase Family Members. J.Biol.Chem. (2009)
- Release Date
- 2008-11-04
- Peptides
- Acylneuraminate cytidylyltransferase: ABCDEFGH
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
BC
CD
DE
AF
BG
CH
D