- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.00 Å
- Oligo State
- homo-tetramer
- Ligands
- 4 x FAD: FLAVIN-ADENINE DINUCLEOTIDE(Non-covalent)
- 4 x TPP: THIAMINE DIPHOSPHATE(Non-covalent)
TPP.2: 27 residues within 4Å:- Chain A: I.398, G.399, N.400, H.401, G.424, I.425, L.426, G.450, D.451, G.452, A.453, Y.456, N.478, S.480, Y.481, G.482, A.483, N.484
- Chain B: F.25, I.26, G.27, E.52, H.76, V.78, G.79, Q.116
- Ligands: MG.3
21 PLIP interactions:19 interactions with chain A, 2 interactions with chain B- Hydrophobic interactions: A:I.425, A:L.426, A:L.426, A:Y.481, A:Y.481, B:F.25
- Hydrogen bonds: A:N.400, A:H.401, A:G.424, A:L.426, A:D.451, A:G.452, A:A.453, A:Y.456, A:N.478, A:S.480, A:G.482, A:A.483
- Salt bridges: A:H.401, A:H.401
- Water bridges: B:Q.116
TPP.15: 28 residues within 4Å:- Chain A: F.25, I.26, G.27, E.52, H.76, V.78, G.79, L.82, Q.116
- Chain B: I.398, G.399, N.400, H.401, G.424, I.425, L.426, G.450, D.451, G.452, A.453, Y.456, N.478, S.480, Y.481, G.482, A.483, N.484
- Ligands: MG.16
17 PLIP interactions:3 interactions with chain A, 14 interactions with chain B- Hydrophobic interactions: A:F.25, A:L.82, B:I.425, B:L.426
- Water bridges: A:G.79
- Hydrogen bonds: B:N.400, B:H.401, B:G.424, B:L.426, B:D.451, B:G.452, B:A.453, B:S.480, B:G.482, B:A.483
- Salt bridges: B:H.401, B:H.401
TPP.24: 27 residues within 4Å:- Chain C: I.398, G.399, N.400, H.401, G.424, I.425, L.426, G.450, D.451, G.452, A.453, Y.456, N.478, S.480, Y.481, G.482, A.483, N.484
- Chain D: F.25, I.26, G.27, E.52, H.76, V.78, G.79, Q.116
- Ligands: MG.25
20 PLIP interactions:18 interactions with chain C, 2 interactions with chain D- Hydrophobic interactions: C:I.425, C:L.426, C:L.426, C:Y.481, C:Y.481, D:F.25
- Hydrogen bonds: C:N.400, C:H.401, C:G.424, C:L.426, C:D.451, C:G.452, C:A.453, C:N.478, C:S.480, C:G.482, C:A.483
- Salt bridges: C:H.401, C:H.401
- Water bridges: D:Q.116
TPP.37: 28 residues within 4Å:- Chain C: F.25, I.26, G.27, E.52, H.76, V.78, G.79, L.82, Q.116
- Chain D: I.398, G.399, N.400, H.401, G.424, I.425, L.426, G.450, D.451, G.452, A.453, Y.456, N.478, S.480, Y.481, G.482, A.483, N.484
- Ligands: MG.38
19 PLIP interactions:16 interactions with chain D, 3 interactions with chain C- Hydrophobic interactions: D:I.425, D:L.426, C:F.25, C:L.82
- Hydrogen bonds: D:N.400, D:H.401, D:G.424, D:L.426, D:D.451, D:G.452, D:A.453, D:Y.456, D:N.478, D:S.480, D:G.482, D:A.483
- Salt bridges: D:H.401, D:H.401
- Water bridges: C:E.52
- 6 x MG: MAGNESIUM ION(Non-covalent)(Non-functional Binders)
MG.3: 4 residues within 4Å:- Chain A: D.451, N.478, S.480
- Ligands: TPP.2
3 PLIP interactions:2 interactions with chain A, 1 Ligand-Water interactions- Metal complexes: A:D.451, A:S.480, H2O.11
MG.13: 1 residues within 4Å:- Ligands: PG4.11
No protein-ligand interaction detected (PLIP)MG.16: 5 residues within 4Å:- Chain B: D.451, N.478, S.480, G.482
- Ligands: TPP.15
3 PLIP interactions:2 interactions with chain B, 1 Ligand-Water interactions- Metal complexes: B:D.451, B:S.480, H2O.21
MG.25: 4 residues within 4Å:- Chain C: D.451, N.478, S.480
- Ligands: TPP.24
3 PLIP interactions:2 interactions with chain C, 1 Ligand-Water interactions- Metal complexes: C:D.451, C:S.480, H2O.34
MG.35: 1 residues within 4Å:- Ligands: PG4.33
No protein-ligand interaction detected (PLIP)MG.38: 5 residues within 4Å:- Chain D: D.451, N.478, S.480, G.482
- Ligands: TPP.37
3 PLIP interactions:2 interactions with chain D, 1 Ligand-Water interactions- Metal complexes: D:D.451, D:S.480, H2O.44
- 18 x PG4: TETRAETHYLENE GLYCOL(Non-functional Binders)
PG4.4: 5 residues within 4Å:- Chain A: P.441, S.443, R.444, P.470
- Ligands: PG4.7
Ligand excluded by PLIPPG4.6: 5 residues within 4Å:- Chain A: E.368, R.379, A.382, R.385, K.386
Ligand excluded by PLIPPG4.7: 4 residues within 4Å:- Chain A: I.533, D.534, G.536
- Ligands: PG4.4
Ligand excluded by PLIPPG4.8: 6 residues within 4Å:- Chain A: E.134, R.135
- Chain B: R.568
- Chain C: R.568
- Chain D: E.134, R.135
Ligand excluded by PLIPPG4.11: 4 residues within 4Å:- Chain A: E.15, E.16, H.41
- Ligands: MG.13
Ligand excluded by PLIPPG4.12: 7 residues within 4Å:- Chain A: A.109, Q.117, V.118, P.119, W.120, R.132
- Chain D: E.134
Ligand excluded by PLIPPG4.19: 9 residues within 4Å:- Chain B: F.147, R.148, E.151, R.183, A.184
- Chain D: P.305, L.308
- Ligands: 2PE.18, 2PE.40
Ligand excluded by PLIPPG4.20: 5 residues within 4Å:- Chain B: R.91, T.124, A.127, R.128
- Ligands: PG4.42
Ligand excluded by PLIPPG4.22: 8 residues within 4Å:- Chain B: A.109, Q.117, V.118, P.119, W.120, R.132
- Chain C: R.132, E.134
Ligand excluded by PLIPPG4.26: 5 residues within 4Å:- Chain C: P.441, S.443, R.444, P.470
- Ligands: PG4.29
Ligand excluded by PLIPPG4.28: 5 residues within 4Å:- Chain C: E.368, R.379, A.382, R.385, K.386
Ligand excluded by PLIPPG4.29: 4 residues within 4Å:- Chain C: I.533, D.534, G.536
- Ligands: PG4.26
Ligand excluded by PLIPPG4.30: 6 residues within 4Å:- Chain A: R.568
- Chain B: E.134, R.135
- Chain C: E.134, R.135
- Chain D: R.568
Ligand excluded by PLIPPG4.33: 4 residues within 4Å:- Chain C: E.15, E.16, H.41
- Ligands: MG.35
Ligand excluded by PLIPPG4.34: 7 residues within 4Å:- Chain B: E.134
- Chain C: A.109, Q.117, V.118, P.119, W.120, R.132
Ligand excluded by PLIPPG4.41: 9 residues within 4Å:- Chain B: P.305, L.308
- Chain D: F.147, R.148, E.151, R.183, A.184
- Ligands: 2PE.18, 2PE.40
Ligand excluded by PLIPPG4.42: 5 residues within 4Å:- Chain D: R.91, T.124, A.127, R.128
- Ligands: PG4.20
Ligand excluded by PLIPPG4.44: 8 residues within 4Å:- Chain A: R.132, E.134
- Chain D: A.109, Q.117, V.118, P.119, W.120, R.132
Ligand excluded by PLIP- 2 x 1PG: 2-(2-{2-[2-(2-METHOXY-ETHOXY)-ETHOXY]-ETHOXY}-ETHOXY)-ETHANOL(Non-covalent)
- 6 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)
PEG.9: 5 residues within 4Å:- Chain A: R.91, T.124, P.125, A.127, R.128
2 PLIP interactions:2 interactions with chain A- Hydrogen bonds: A:R.91, A:R.91
PEG.10: 1 residues within 4Å:- Chain A: Q.494
1 PLIP interactions:1 interactions with chain A- Hydrogen bonds: A:Q.494
PEG.21: 5 residues within 4Å:- Chain B: E.366, S.369, P.374, S.376, Q.549
2 PLIP interactions:2 interactions with chain B- Hydrogen bonds: B:S.369, B:P.374
PEG.31: 5 residues within 4Å:- Chain C: R.91, T.124, P.125, A.127, R.128
2 PLIP interactions:2 interactions with chain C- Hydrogen bonds: C:R.91, C:R.91
PEG.32: 1 residues within 4Å:- Chain C: Q.494
1 PLIP interactions:1 interactions with chain C- Hydrogen bonds: C:Q.494
PEG.43: 5 residues within 4Å:- Chain D: E.366, S.369, P.374, S.376, Q.549
2 PLIP interactions:2 interactions with chain D- Hydrogen bonds: D:S.369, D:P.374
- 4 x 2PE: NONAETHYLENE GLYCOL(Non-covalent)
2PE.17: 9 residues within 4Å:- Chain B: V.387, Q.388, R.389, P.390, P.441, N.442, S.443, R.444, P.470
2 PLIP interactions:2 interactions with chain B- Hydrogen bonds: B:R.444, B:R.444
2PE.18: 21 residues within 4Å:- Chain B: E.151, H.153, A.184, K.185, S.186, L.188, T.303, P.305, V.319
- Chain D: E.151, H.153, R.183, A.184, K.185, S.186, L.188, T.303, P.305
- Ligands: PG4.19, 2PE.40, PG4.41
4 PLIP interactions:2 interactions with chain B, 2 interactions with chain D- Hydrogen bonds: B:E.151, B:H.153, D:E.151
- Water bridges: D:S.186
2PE.39: 9 residues within 4Å:- Chain D: V.387, Q.388, R.389, P.390, P.441, N.442, S.443, R.444, P.470
2 PLIP interactions:2 interactions with chain D- Hydrogen bonds: D:R.444, D:R.444
2PE.40: 21 residues within 4Å:- Chain B: E.151, H.153, R.183, A.184, K.185, S.186, L.188, T.303, P.305
- Chain D: E.151, H.153, A.184, K.185, S.186, L.188, T.303, P.305, V.319
- Ligands: 2PE.18, PG4.19, PG4.41
4 PLIP interactions:3 interactions with chain B, 1 interactions with chain D- Hydrogen bonds: B:E.151, B:H.153, D:E.151
- Water bridges: B:S.186
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Loschonsky, S. et al., Extended Reaction Scope of Thiamine Diphosphate Dependent Cyclohexane-1,2-Dione Hydrolase: From C-C Bond Cleavage to C-C Bond Ligation. Angew.Chem.Int.Ed.Engl. (2014)
- Release Date
- 2015-01-21
- Peptides
- CYCLOHEXANE-1,2-DIONE HYDROLASE: ABCD
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
BC
AD
B
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.00 Å
- Oligo State
- homo-tetramer
- Ligands
- 4 x FAD: FLAVIN-ADENINE DINUCLEOTIDE(Non-covalent)
- 4 x TPP: THIAMINE DIPHOSPHATE(Non-covalent)
- 6 x MG: MAGNESIUM ION(Non-covalent)(Non-functional Binders)
- 18 x PG4: TETRAETHYLENE GLYCOL(Non-functional Binders)
- 2 x 1PG: 2-(2-{2-[2-(2-METHOXY-ETHOXY)-ETHOXY]-ETHOXY}-ETHOXY)-ETHANOL(Non-covalent)
- 6 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)
- 4 x 2PE: NONAETHYLENE GLYCOL(Non-covalent)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Loschonsky, S. et al., Extended Reaction Scope of Thiamine Diphosphate Dependent Cyclohexane-1,2-Dione Hydrolase: From C-C Bond Cleavage to C-C Bond Ligation. Angew.Chem.Int.Ed.Engl. (2014)
- Release Date
- 2015-01-21
- Peptides
- CYCLOHEXANE-1,2-DIONE HYDROLASE: ABCD
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
BC
AD
B