- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.01 Å
- Oligo State
- homo-tetramer
- Ligands
- 5 x IOD: IODIDE ION(Non-functional Binders)
- 4 x FAD: FLAVIN-ADENINE DINUCLEOTIDE(Non-covalent)
FAD.3: 22 residues within 4Å:- Chain A: R.95, H.96, R.97, H.98, H.194, M.198, R.199, H.203
- Chain B: C.43, S.71, E.74, H.98, N.188, R.190
- Chain D: S.100, S.102, Q.103, S.105, R.107, Y.108
- Ligands: BRU.4, FAD.8
28 PLIP interactions:17 interactions with chain A, 8 interactions with chain B, 3 interactions with chain D- Hydrophobic interactions: A:H.203
- Hydrogen bonds: A:R.95, A:R.95, A:R.97, A:R.97, A:H.98, A:H.194, A:R.199, B:S.71, B:S.71, B:N.188, D:S.100, D:Q.103, D:Q.103
- Water bridges: A:H.96, A:H.98, A:H.194, B:S.71, B:R.190
- Salt bridges: A:H.96, A:H.96, A:R.97, A:R.97, A:H.194, A:H.194, B:R.190
- pi-Stacking: B:H.98, B:H.98
FAD.8: 23 residues within 4Å:- Chain A: C.43, S.71, E.74, H.98, N.188, R.190, A.191
- Chain B: R.95, H.96, R.97, H.98, H.194, M.198, R.199, H.203
- Chain C: S.102, Q.103, S.105, R.107, Y.108
- Ligands: FAD.3, GOL.7, BRU.9
30 PLIP interactions:11 interactions with chain A, 16 interactions with chain B, 3 interactions with chain C- Hydrogen bonds: A:S.71, A:S.71, A:E.74, A:N.188, B:R.95, B:R.95, B:R.97, B:R.97, B:H.194, B:R.199, C:S.100, C:Q.103, C:Q.103
- Water bridges: A:S.71, A:S.71, A:R.190, A:R.190, B:H.98, B:H.98, B:H.194
- Salt bridges: A:R.190, B:H.96, B:H.96, B:R.97, B:R.97, B:H.194, B:H.194
- pi-Stacking: A:H.98, A:H.98
- Hydrophobic interactions: B:H.203
FAD.13: 23 residues within 4Å:- Chain B: S.100, S.102, Q.103, S.105, Y.108
- Chain C: R.95, H.96, R.97, H.98, H.194, M.198, R.199, H.203
- Chain D: C.43, S.71, E.74, H.98, N.188, R.190
- Ligands: BRU.14, IOD.16, FAD.18, GOL.21
27 PLIP interactions:17 interactions with chain C, 3 interactions with chain B, 7 interactions with chain D- Hydrophobic interactions: C:H.203
- Hydrogen bonds: C:R.95, C:R.95, C:R.97, C:R.97, C:H.98, C:H.194, C:R.199, B:S.100, B:Q.103, B:Q.103, D:S.71, D:S.71, D:N.188
- Water bridges: C:H.98, C:F.99, C:H.194, D:R.190
- Salt bridges: C:H.96, C:H.96, C:R.97, C:R.97, C:H.194, C:H.194, D:R.190
- pi-Stacking: D:H.98, D:H.98
FAD.18: 21 residues within 4Å:- Chain A: S.100, S.102, Q.103, S.105, R.107
- Chain C: C.43, S.71, E.74, H.98, N.188, R.190
- Chain D: R.95, H.96, R.97, H.98, H.194, M.198, R.199, H.203
- Ligands: FAD.13, BRU.19
28 PLIP interactions:16 interactions with chain D, 8 interactions with chain C, 4 interactions with chain A- Hydrogen bonds: D:R.95, D:R.95, D:R.97, D:R.97, D:H.194, D:R.199, C:S.71, C:N.188, A:Q.103, A:Q.103
- Water bridges: D:R.95, D:R.97, D:H.98, D:H.98, C:S.71, C:H.98, C:R.190, A:R.97, A:S.100
- Salt bridges: D:H.96, D:H.96, D:R.97, D:R.97, D:H.194, D:H.194, C:R.190
- pi-Stacking: C:H.98, C:H.98
- 4 x BRU: 5-BROMO-2'-DEOXYURIDINE-5'-MONOPHOSPHATE(Non-covalent)
BRU.4: 13 residues within 4Å:- Chain A: H.91, E.92, R.95, R.199
- Chain D: R.87, Q.103, L.104, S.105, Q.106, R.107, Y.108, R.172
- Ligands: FAD.3
16 PLIP interactions:9 interactions with chain A, 7 interactions with chain D- Hydrophobic interactions: A:E.92, A:R.95
- Hydrogen bonds: A:H.91, A:E.92, A:E.92, A:R.95, A:R.199, A:R.199, D:Q.106, D:R.107, D:R.107
- Water bridges: A:D.205, D:R.87, D:R.172
- Salt bridges: D:R.87, D:R.172
BRU.9: 13 residues within 4Å:- Chain B: H.91, E.92, R.95, R.199
- Chain C: R.87, Q.103, L.104, S.105, Q.106, R.107, Y.108, R.172
- Ligands: FAD.8
13 PLIP interactions:7 interactions with chain B, 6 interactions with chain C- Hydrophobic interactions: B:R.95
- Hydrogen bonds: B:H.91, B:E.92, B:R.95, B:R.199, B:R.199, C:Q.106, C:R.107, C:R.107
- Water bridges: B:E.92, C:R.172
- Salt bridges: C:R.87, C:R.172
BRU.14: 13 residues within 4Å:- Chain B: R.87, Q.103, L.104, S.105, Q.106, R.107, Y.108, R.172
- Chain C: H.91, E.92, R.95, R.199
- Ligands: FAD.13
15 PLIP interactions:8 interactions with chain C, 7 interactions with chain B- Hydrophobic interactions: C:R.95
- Hydrogen bonds: C:H.91, C:E.92, C:E.92, C:R.95, C:R.199, C:R.199, B:Q.106, B:R.107, B:R.107
- Water bridges: C:D.205, B:R.87, B:R.87
- Salt bridges: B:R.87, B:R.172
BRU.19: 12 residues within 4Å:- Chain A: R.87, Q.103, L.104, S.105, Q.106, R.107, R.172
- Chain D: H.91, E.92, R.95, R.199
- Ligands: FAD.18
15 PLIP interactions:7 interactions with chain A, 8 interactions with chain D- Hydrogen bonds: A:Q.106, A:R.107, A:R.107, D:H.91, D:E.92, D:R.95, D:R.199, D:R.199
- Water bridges: A:R.87, A:R.87, D:D.205
- Salt bridges: A:R.87, A:R.172
- Hydrophobic interactions: D:E.92, D:R.95
- 8 x GOL: GLYCEROL(Non-functional Binders)
GOL.5: 10 residues within 4Å:- Chain A: K.14, T.15, G.31, G.32, P.33, A.76, S.77, V.78, Y.189, V.222
5 PLIP interactions:5 interactions with chain A- Hydrogen bonds: A:T.15, A:T.15, A:G.32, A:S.77, A:V.222
GOL.6: 5 residues within 4Å:- Chain A: R.41, S.48, P.50, T.54, Y.60
4 PLIP interactions:4 interactions with chain A- Hydrogen bonds: A:R.41, A:R.41, A:T.54
- Water bridges: A:S.46
GOL.7: 5 residues within 4Å:- Chain A: G.68, H.69, S.71, V.72
- Ligands: FAD.8
4 PLIP interactions:1 interactions with chain B, 3 interactions with chain A- Water bridges: B:R.95, A:S.71, A:S.71
- Hydrogen bonds: A:G.68
GOL.10: 9 residues within 4Å:- Chain B: K.14, T.15, G.31, G.32, A.76, S.77, V.78, Y.189, V.222
5 PLIP interactions:5 interactions with chain B- Hydrogen bonds: B:T.15, B:T.15, B:G.32, B:S.77, B:S.77
GOL.11: 6 residues within 4Å:- Chain B: L.216, R.217, A.220, F.227, F.230, V.232
2 PLIP interactions:2 interactions with chain B- Hydrogen bonds: B:L.216, B:F.230
GOL.15: 9 residues within 4Å:- Chain C: K.14, T.15, G.31, G.32, A.76, S.77, V.78, Y.189, V.222
8 PLIP interactions:8 interactions with chain C- Hydrogen bonds: C:T.15, C:T.15, C:T.15, C:G.32, C:S.77, C:S.77, C:Y.189, C:V.222
GOL.20: 6 residues within 4Å:- Chain D: R.41, S.46, P.50, N.51, T.54, Y.60
7 PLIP interactions:7 interactions with chain D- Hydrogen bonds: D:R.41, D:R.41, D:S.46, D:N.51, D:T.54, D:H.63
- Water bridges: D:S.46
GOL.21: 5 residues within 4Å:- Chain D: H.69, S.71, V.72
- Ligands: FAD.13, IOD.16
No protein-ligand interaction detected (PLIP)- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Sampathkumar, P. et al., Structure of the Mycobacterium tuberculosis Flavin Dependent Thymidylate Synthase (MtbThyX) at 2.0A Resolution. J.Mol.Biol. (2005)
- Release Date
- 2005-10-04
- Peptides
- Thymidylate synthase thyX: ABCD
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
BC
CD
D
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.01 Å
- Oligo State
- homo-tetramer
- Ligands
- 5 x IOD: IODIDE ION(Non-functional Binders)
- 4 x FAD: FLAVIN-ADENINE DINUCLEOTIDE(Non-covalent)
- 4 x BRU: 5-BROMO-2'-DEOXYURIDINE-5'-MONOPHOSPHATE(Non-covalent)
- 8 x GOL: GLYCEROL(Non-functional Binders)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Sampathkumar, P. et al., Structure of the Mycobacterium tuberculosis Flavin Dependent Thymidylate Synthase (MtbThyX) at 2.0A Resolution. J.Mol.Biol. (2005)
- Release Date
- 2005-10-04
- Peptides
- Thymidylate synthase thyX: ABCD
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
BC
CD
D