SMTL ID : 5x5q.3 (2 other biounits)

Human thymidylate synthase complexed with dUMP and raltitrexed

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.79 Å

Oligo State

homo-dimer

Ligands

2 x UMP: 2'-DEOXYURIDINE 5'-MONOPHOSPHATE(Non-covalent)

UMP.1: 15 residues within 4Å: Chain A: R.27, C.172, H.173, Q.191, R.192, S.193, G.194, D.195, G.199, N.203, H.233, Y.235 Chain B: R.152, R.153 Ligands: D16.2 12 PLIP interactions: 10 interactions with chain A, 2 interactions with chain B Hydrophobic interactions: A:D.195 Hydrogen bonds: A:Q.191, A:S.193, A:D.195, A:N.203, A:N.203, A:H.233, A:Y.235 Salt bridges: A:R.27, A:R.192, B:R.152, B:R.153 UMP.3: 13 residues within 4Å: Chain A: R.152, R.153 Chain B: C.172, H.173, Q.191, R.192, S.193, G.194, D.195, N.203, H.233, Y.235 Ligands: D16.4 12 PLIP interactions: 2 interactions with chain A, 10 interactions with chain B Salt bridges: A:R.152, A:R.153, B:R.192 Hydrophobic interactions: B:D.195 Hydrogen bonds: B:Q.191, B:S.193, B:S.193, B:D.195, B:N.203, B:N.203, B:H.233, B:Y.235

2 x D16: TOMUDEX(Non-covalent)

D16.2: 8 residues within 4Å: Chain A: F.57, I.85, D.195, L.198, G.199, F.202, Y.235 Ligands: UMP.1 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:I.85, A:I.85, A:L.198, A:Y.235 Hydrogen bonds: A:D.195, A:D.195 pi-Stacking: A:F.202 D16.4: 9 residues within 4Å: Chain B: R.55, F.57, I.85, D.195, L.198, G.199, F.202, Y.235 Ligands: UMP.3 9 PLIP interactions: 9 interactions with chain B Hydrophobic interactions: B:I.85, B:I.85, B:L.198, B:Y.235 Hydrogen bonds: B:R.55, B:D.195, B:D.195 Salt bridges: B:R.55 pi-Stacking: B:F.202

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Chen, D. et al., Structural analyses of human thymidylate synthase reveal a site that may control conformational switching between active and inactive states. J. Biol. Chem. (2017)

Release Date

2017-06-28

Peptides

Thymidylate synthase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
C

B
F

Thymidylate synthase

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