SMTL ID : 6ojv.1 (1 other biounit)

Crystal structure of human thymidylate synthase delta(7-29) in complex with dUMP and 2-amino-4-oxo-4,7-dihydro-pyrrolo[2,3-d]pyrimidine-methyl-phenyl-L-glutamic acid

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.59 Å

Oligo State

homo-dimer

Ligands

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

UMP.1: 14 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 Ligands: 2XB.2 10 PLIP interactions: 10 interactions with chain A Hydrophobic interactions: A:D.195 Hydrogen bonds: A:H.173, A:Q.191, A:S.193, A:D.195, A:N.203, A:N.203, A:H.233 Salt bridges: A:R.27, A:R.192 UMP.3: 15 residues within 4Å: Chain B: R.27, Y.112, 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: 2XB.4 11 PLIP interactions: 11 interactions with chain B Hydrophobic interactions: B:D.195 Hydrogen bonds: B:Q.191, B:S.193, B:D.195, B:D.195, B:N.203, B:N.203, B:H.233 Water bridges: B:R.27 Salt bridges: B:R.27, B:R.192

2 x 2XB: N-{4-[(2-amino-4-hydroxy-7H-pyrrolo[2,3-d]pyrimidin-5-yl)methyl]benzoyl}-L-glutamic acid(Non-covalent)

2XB.2: 13 residues within 4Å: Chain A: F.57, I.85, W.86, N.89, L.169, D.195, L.198, G.199, F.202, Y.235, M.288, A.289 Ligands: UMP.1 12 PLIP interactions: 12 interactions with chain A Hydrophobic interactions: A:F.57, A:I.85, A:I.85, A:L.198, A:L.198 Hydrogen bonds: A:N.89, A:A.289, A:A.289 Salt bridges: A:K.54, A:D.195 pi-Stacking: A:W.86, A:F.202 2XB.4: 13 residues within 4Å: Chain B: F.57, I.85, W.86, N.89, L.169, D.195, L.198, G.199, F.202, Y.235, M.288, A.289 Ligands: UMP.3 11 PLIP interactions: 11 interactions with chain B Hydrophobic interactions: B:F.57, B:I.85, B:I.85 Hydrogen bonds: B:N.89, B:D.195, B:Y.235, B:A.289 Salt bridges: B:K.54, B:D.195 pi-Stacking: B:W.86, B:F.202

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Czyzyk, D.J. et al., Understanding the structural basis of species selective, stereospecific inhibition for Cryptosporidium and human thymidylate synthase. Febs Lett. (2019)

Release Date

2019-06-19

Peptides

Thymidylate synthase,Thymidylate synthase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

B
C

Thymidylate synthase,Thymidylate synthase

Related Entries With Identical Sequence