- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.50 Å
- Oligo State
- homo-tetramer
- Ligands
- 4 x FAD: FLAVIN-ADENINE DINUCLEOTIDE(Non-covalent)
- 4 x UMP: 2'-DEOXYURIDINE 5'-MONOPHOSPHATE(Non-covalent)
UMP.2: 12 residues within 4Å:- Chain A: F.89, E.98, L.99, S.100, G.101, R.102, R.159
- Chain D: R.86, Q.87, R.90, R.186
- Ligands: FAD.1
19 PLIP interactions:12 interactions with chain D, 7 interactions with chain A- Hydrophobic interactions: D:R.90
- Hydrogen bonds: D:Q.87, D:R.90, D:R.186, D:R.186, A:G.101, A:R.102, A:R.102
- Water bridges: D:R.86, D:R.86, D:R.86, D:R.86, D:Q.87, D:Q.192, A:E.98, A:E.98, A:R.159
- Salt bridges: D:R.86, A:R.159
UMP.6: 12 residues within 4Å:- Chain B: F.89, E.98, L.99, S.100, G.101, R.102, R.159
- Chain C: R.86, Q.87, R.90, R.186
- Ligands: FAD.5
19 PLIP interactions:12 interactions with chain C, 7 interactions with chain B- Hydrophobic interactions: C:R.90
- Hydrogen bonds: C:Q.87, C:R.90, C:R.186, C:R.186, B:G.101, B:R.102, B:R.102
- Water bridges: C:R.86, C:R.86, C:R.86, C:R.86, C:Q.87, C:Q.192, B:E.98, B:E.98, B:R.159
- Salt bridges: C:R.86, B:R.159
UMP.10: 12 residues within 4Å:- Chain B: R.86, Q.87, R.90, R.186
- Chain C: F.89, E.98, L.99, S.100, G.101, R.102, R.159
- Ligands: FAD.9
19 PLIP interactions:7 interactions with chain C, 12 interactions with chain B- Hydrogen bonds: C:G.101, C:R.102, C:R.102, B:Q.87, B:R.90, B:R.186, B:R.186
- Water bridges: C:E.98, C:E.98, C:R.159, B:R.86, B:R.86, B:R.86, B:R.86, B:Q.87, B:Q.192
- Salt bridges: C:R.159, B:R.86
- Hydrophobic interactions: B:R.90
UMP.14: 12 residues within 4Å:- Chain A: R.86, Q.87, R.90, R.186
- Chain D: F.89, E.98, L.99, S.100, G.101, R.102, R.159
- Ligands: FAD.13
19 PLIP interactions:12 interactions with chain A, 7 interactions with chain D- Hydrophobic interactions: A:R.90
- Hydrogen bonds: A:Q.87, A:R.90, A:R.186, A:R.186, D:G.101, D:R.102, D:R.102
- Water bridges: A:R.86, A:R.86, A:R.86, A:R.86, A:Q.87, A:Q.192, D:E.98, D:E.98, D:R.159
- Salt bridges: A:R.86, D:R.159
- 4 x FFO: N-[4-({[(6S)-2-amino-5-formyl-4-oxo-3,4,5,6,7,8-hexahydropteridin-6-yl]methyl}amino)benzoyl]-L-glutamic acid(Non-covalent)
FFO.3: 13 residues within 4Å:- Chain A: N.97, Y.103
- Chain C: A.39, R.40, S.42, F.43, L.56, Y.59, L.60, H.65, T.67
- Chain D: L.185
- Ligands: FAD.1
16 PLIP interactions:14 interactions with chain C, 2 interactions with chain A- Hydrophobic interactions: C:A.39, C:F.43, C:F.43, C:L.56, C:Y.59
- Hydrogen bonds: C:S.42, C:H.65, C:T.67, A:Y.103
- Water bridges: C:R.40, C:R.40, C:G.64, C:H.65, C:E.66, A:Y.103
- pi-Stacking: C:H.65
FFO.7: 13 residues within 4Å:- Chain B: N.97, Y.103
- Chain C: L.185
- Chain D: A.39, R.40, S.42, F.43, L.56, Y.59, L.60, H.65, T.67
- Ligands: FAD.5
15 PLIP interactions:14 interactions with chain D, 1 interactions with chain B- Hydrophobic interactions: D:A.39, D:F.43, D:F.43, D:L.56, D:Y.59
- Hydrogen bonds: D:S.42, D:T.67
- Water bridges: D:R.40, D:R.40, D:G.64, D:H.65, D:H.65, D:E.66, B:Y.103
- pi-Stacking: D:H.65
FFO.11: 13 residues within 4Å:- Chain A: A.39, R.40, S.42, F.43, L.56, Y.59, L.60, H.65, T.67
- Chain B: L.185
- Chain C: N.97, Y.103
- Ligands: FAD.9
16 PLIP interactions:14 interactions with chain A, 2 interactions with chain C- Hydrophobic interactions: A:A.39, A:F.43, A:F.43, A:L.56, A:Y.59
- Hydrogen bonds: A:S.42, A:H.65, A:T.67, C:Y.103
- Water bridges: A:R.40, A:R.40, A:G.64, A:H.65, A:E.66, C:Y.103
- pi-Stacking: A:H.65
FFO.15: 13 residues within 4Å:- Chain A: L.185
- Chain B: A.39, R.40, S.42, F.43, L.56, Y.59, L.60, H.65, T.67
- Chain D: N.97, Y.103
- Ligands: FAD.13
15 PLIP interactions:14 interactions with chain B, 1 interactions with chain D- Hydrophobic interactions: B:A.39, B:F.43, B:F.43, B:L.56, B:Y.59
- Hydrogen bonds: B:S.42, B:T.67
- Water bridges: B:R.40, B:R.40, B:G.64, B:H.65, B:H.65, B:E.66, D:Y.103
- pi-Stacking: B:H.65
- 4 x CL: CHLORIDE ION(Non-functional Binders)
CL.4: 3 residues within 4Å:- Chain A: S.107, Y.108, Y.142
Ligand excluded by PLIPCL.8: 3 residues within 4Å:- Chain B: S.107, Y.108, Y.142
Ligand excluded by PLIPCL.12: 3 residues within 4Å:- Chain C: S.107, Y.108, Y.142
Ligand excluded by PLIPCL.16: 3 residues within 4Å:- Chain D: S.107, Y.108, Y.142
Ligand excluded by PLIP- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Koehn, E.M. et al., Folate binding site of flavin-dependent thymidylate synthase. Proc.Natl.Acad.Sci.USA (2012)
- Release Date
- 2012-10-17
- Peptides
- Thymidylate synthase thyX: ABCD
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
AC
AD
A
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.50 Å
- Oligo State
- homo-tetramer
- Ligands
- 4 x FAD: FLAVIN-ADENINE DINUCLEOTIDE(Non-covalent)
- 4 x UMP: 2'-DEOXYURIDINE 5'-MONOPHOSPHATE(Non-covalent)
- 4 x FFO: N-[4-({[(6S)-2-amino-5-formyl-4-oxo-3,4,5,6,7,8-hexahydropteridin-6-yl]methyl}amino)benzoyl]-L-glutamic acid(Non-covalent)
- 4 x CL: CHLORIDE ION(Non-functional Binders)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Koehn, E.M. et al., Folate binding site of flavin-dependent thymidylate synthase. Proc.Natl.Acad.Sci.USA (2012)
- Release Date
- 2012-10-17
- Peptides
- Thymidylate synthase thyX: ABCD
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
AC
AD
A