SMTL ID : 2cfa.1

Structure of viral flavin-dependant thymidylate synthase ThyX

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.30 Å

Oligo State

hetero-2-2-mer

Ligands

4 x FAD: FLAVIN-ADENINE DINUCLEOTIDE(Non-covalent)

FAD.1: 20 residues within 4Å: Chain A: W.54, R.78, H.79, R.80, S.81, R.173, D.174, H.177, R.182 Chain C: Q.85, E.86 Chain D: S.30, N.31, H.51, K.52, H.53, W.54, S.55, R.173 Ligands: FAD.4 28 PLIP interactions: 11 interactions with chain D, 15 interactions with chain A, 2 interactions with chain C Hydrophobic interactions: D:H.51 Hydrogen bonds: D:N.31, D:W.54, D:S.55, D:S.55, D:S.55, A:R.78, A:R.78, A:R.80, A:S.81, A:S.81, A:S.81, A:R.173, A:D.174, A:D.174, A:H.177, A:R.182, C:E.86, C:E.86 Water bridges: D:K.52, D:R.173 Salt bridges: D:R.173, A:H.79, A:H.79 pi-Stacking: D:H.53, D:H.53, A:H.177, A:H.177 FAD.2: 20 residues within 4Å: Chain B: W.54, R.78, H.79, R.80, S.81, R.173, D.174, H.177, L.181, R.182 Chain C: C.48, H.51, K.52, H.53, W.54, S.55, R.173 Chain D: Q.85, E.86 Ligands: FAD.3 27 PLIP interactions: 13 interactions with chain B, 11 interactions with chain C, 3 interactions with chain D Hydrophobic interactions: B:L.181 Hydrogen bonds: B:R.78, B:R.78, B:R.80, B:S.81, B:S.81, B:R.173, B:D.174, B:R.182, C:W.54, C:S.55, C:S.55, C:S.55, D:Q.85, D:E.86, D:E.86 Salt bridges: B:H.79, B:H.79, C:R.173 pi-Stacking: B:H.177, B:H.177, C:H.53 Water bridges: C:K.52, C:K.52, C:W.54, C:R.80, C:R.173 FAD.3: 20 residues within 4Å: Chain A: Q.85, E.86 Chain B: S.30, N.31, H.51, K.52, H.53, W.54, S.55, R.173 Chain C: W.54, R.78, H.79, R.80, S.81, R.173, D.174, H.177, R.182 Ligands: FAD.2 28 PLIP interactions: 2 interactions with chain A, 11 interactions with chain B, 15 interactions with chain C Hydrogen bonds: A:E.86, A:E.86, B:N.31, B:W.54, B:S.55, B:S.55, B:S.55, C:R.78, C:R.78, C:R.80, C:S.81, C:S.81, C:S.81, C:R.173, C:D.174, C:D.174, C:H.177, C:R.182 Hydrophobic interactions: B:H.51 Water bridges: B:K.52, B:R.173 Salt bridges: B:R.173, C:H.79, C:H.79 pi-Stacking: B:H.53, B:H.53, C:H.177, C:H.177 FAD.4: 20 residues within 4Å: Chain A: C.48, H.51, K.52, H.53, W.54, S.55, R.173 Chain B: Q.85, E.86 Chain D: W.54, R.78, H.79, R.80, S.81, R.173, D.174, H.177, L.181, R.182 Ligands: FAD.1 27 PLIP interactions: 11 interactions with chain A, 13 interactions with chain D, 3 interactions with chain B Hydrogen bonds: A:W.54, A:S.55, A:S.55, A:S.55, D:R.78, D:R.78, D:R.80, D:S.81, D:S.81, D:R.173, D:D.174, D:R.182, B:Q.85, B:E.86, B:E.86 Water bridges: A:K.52, A:K.52, A:W.54, A:R.80, A:R.173 Salt bridges: A:R.173, D:H.79, D:H.79 pi-Stacking: A:H.53, D:H.177, D:H.177 Hydrophobic interactions: D:L.181

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Graziani, S. et al., Catalytic Mechanism and Structure of Viral Flavin-Dependent Thymidylate Synthase Thyx. J.Biol.Chem. (2006)

Release Date

2006-05-16

Peptides

THYMIDYLATE SYNTHASE: AC
THYMIDYLATE SYNTHASE: BD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

C
A

B
B

D
B

THYMIDYLATE SYNTHASE

THYMIDYLATE SYNTHASE