SMTL ID : 5x67.1

Human thymidylate synthase in complex with dUMP and nolatrexed

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.13 Å

Oligo State

homo-dimer

Ligands

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

UMP.1: 16 residues within 4Å: Chain A: R.27, L.169, 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: 7Z9.2 13 PLIP interactions: 10 interactions with chain A, 3 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 Water bridges: B:R.152 UMP.3: 16 residues within 4Å: Chain A: R.152, R.153 Chain B: R.27, L.169, C.172, H.173, Q.191, R.192, S.193, G.194, D.195, G.199, N.203, H.233, Y.235 Ligands: 7Z9.4 13 PLIP interactions: 10 interactions with chain B, 3 interactions with chain A Hydrogen bonds: B:Q.191, B:S.193, B:D.195, B:N.203, B:N.203, B:H.233, B:Y.235 Water bridges: B:H.173, A:R.152 Salt bridges: B:R.27, B:R.192, A:R.152, A:R.153

2 x 7Z9: 2-azanyl-6-methyl-5-pyridin-4-ylsulfanyl-3H-quinazolin-4-one(Non-covalent)

7Z9.2: 11 residues within 4Å: Chain A: I.85, W.86, N.89, D.195, L.198, G.199, F.202, Y.235, M.288, A.289 Ligands: UMP.1 11 PLIP interactions: 11 interactions with chain A Hydrophobic interactions: A:I.85, A:W.86, A:F.202 Hydrogen bonds: A:D.195, A:Y.235, A:A.289, A:A.289 Water bridges: A:R.27 Salt bridges: A:D.195 pi-Stacking: A:W.86, A:F.202 7Z9.4: 11 residues within 4Å: Chain B: I.85, W.86, N.89, D.195, L.198, G.199, F.202, Y.235, M.288, A.289 Ligands: UMP.3 12 PLIP interactions: 12 interactions with chain B Hydrophobic interactions: B:I.85, B:W.86, B:F.202 Hydrogen bonds: B:D.195, B:Y.235, B:A.289, B:A.289 Water bridges: B:R.27, B:D.195 Salt bridges: B:D.195 pi-Stacking: B:W.86, 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
A

B
B

Thymidylate synthase

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