SMTL ID : 1hvy.2 (1 other biounit)

Human thymidylate synthase complexed with dUMP and Raltitrexed, an antifolate drug, is in the closed conformation

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.90 Å

Oligo State

homo-dimer

Ligands

2 x D16: TOMUDEX(Non-covalent)

D16.1: 12 residues within 4Å: Chain A: F.55, E.62, I.83, W.84, N.87, D.193, L.196, G.197, F.200, Y.233, M.286 Ligands: UMP.2 11 PLIP interactions: 11 interactions with chain A Hydrophobic interactions: A:F.55, A:I.83, A:W.84, A:Y.233 Hydrogen bonds: A:D.193, A:G.197 Water bridges: A:K.52, A:I.83, A:A.287 Salt bridges: A:K.52 pi-Stacking: A:F.200 D16.4: 14 residues within 4Å: Chain B: F.55, E.62, I.83, W.84, N.87, L.167, D.193, L.196, G.197, F.200, Y.233, M.286, A.287 Ligands: UMP.5 12 PLIP interactions: 12 interactions with chain B Hydrophobic interactions: B:F.55, B:I.83, B:W.84, B:L.167, B:F.200, B:Y.233, B:A.287 Hydrogen bonds: B:D.193, B:G.197 Water bridges: B:A.287 Salt bridges: B:K.52 pi-Stacking: B:F.200

2 x UMP: 2'-DEOXYURIDINE 5'-MONOPHOSPHATE(Covalent)

UMP.2: 16 residues within 4Å: Chain A: R.25, L.167, C.170, H.171, Q.189, R.190, S.191, G.192, D.193, G.197, N.201, H.231, Y.233 Chain B: R.150, R.151 Ligands: D16.1 13 PLIP interactions: 10 interactions with chain A, 3 interactions with chain B Hydrogen bonds: A:Q.189, A:S.191, A:D.193, A:N.201, A:N.201, A:H.231, A:Y.233 Water bridges: A:C.170, B:R.150 Salt bridges: A:R.25, A:R.190, B:R.150, B:R.151 UMP.5: 17 residues within 4Å: Chain A: R.150, R.151 Chain B: R.25, Y.110, L.167, C.170, H.171, Q.189, R.190, S.191, G.192, D.193, G.197, N.201, H.231, Y.233 Ligands: D16.4 12 PLIP interactions: 3 interactions with chain A, 9 interactions with chain B Water bridges: A:R.150 Salt bridges: A:R.150, A:R.151, B:R.25, B:R.190 Hydrogen bonds: B:Y.110, B:Q.189, B:S.191, B:D.193, B:N.201, B:N.201, B:H.231

2 x BME: BETA-MERCAPTOETHANOL(Non-functional Binders)

BME.3: 6 residues within 4Å: Chain A: R.138, V.139, T.142, R.151, I.152, I.153 No protein-ligand interaction detected (PLIP) BME.6: 7 residues within 4Å: Chain B: R.138, V.139, T.142, D.149, R.151, I.152, I.153 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Phan, J. et al., Human thymidylate synthase is in the closed conformation when complexed with dUMP and raltitrexed, an antifolate drug. Biochemistry (2001)

Release Date

2001-01-31

Peptides

THYMIDYLATE SYNTHASE: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
C

B
D

THYMIDYLATE SYNTHASE

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