SMTL ID : 6y08.1

Mouse thymidylate synthase cocrystallized with dUMP and soaked in sulfamethoxazole

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.30 Å

Oligo State

homo-dimer

Ligands

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

UMP.1: 15 residues within 4Å: Chain A: R.44, C.189, H.190, Q.208, R.209, S.210, G.211, D.212, G.216, N.220, H.250, Y.252 Chain B: R.169, R.170 Ligands: 08D.2 10 PLIP interactions: 8 interactions with chain A, 2 interactions with chain B Hydrogen bonds: A:Q.208, A:S.210, A:D.212, A:N.220, A:N.220, A:H.250 Salt bridges: A:R.44, A:R.209, B:R.169, B:R.170 UMP.3: 15 residues within 4Å: Chain A: R.169, R.170 Chain B: R.44, C.189, H.190, Q.208, R.209, S.210, G.211, D.212, G.216, N.220, H.250, Y.252 Ligands: 08D.4 11 PLIP interactions: 2 interactions with chain A, 9 interactions with chain B Salt bridges: A:R.169, A:R.170, B:R.44, B:R.209 Hydrogen bonds: B:Q.208, B:S.210, B:D.212, B:N.220, B:N.220, B:H.250, B:Y.252

2 x 08D: Sulfamethoxazole(Non-covalent)

08D.2: 9 residues within 4Å: Chain A: I.102, W.103, N.106, L.186, L.215, G.216, F.219, N.220 Ligands: UMP.1 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:I.102, A:W.103, A:L.186 Hydrogen bonds: A:N.220 pi-Stacking: A:W.103, A:W.103, A:F.219 08D.4: 9 residues within 4Å: Chain B: I.102, W.103, N.106, L.186, L.215, G.216, F.219, N.220 Ligands: UMP.3 9 PLIP interactions: 9 interactions with chain B Hydrophobic interactions: B:I.102, B:W.103, B:L.186, B:L.215, B:L.215, B:F.219 Hydrogen bonds: B:N.220 pi-Stacking: B:W.103, B:W.103

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Maj, P. et al., Mouse thymidylate synthase cocrystallized with dUMP and soaked in sulfamethoxazole. To Be Published

Release Date

2021-02-17

Peptides

Thymidylate synthase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Thymidylate synthase

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