SMTL ID : 2aaz.1 (7 other biounits)

Cryptococcus neoformans thymidylate synthase complexed with substrate and an antifolate

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.08 Å

Oligo State

homo-dimer

Ligands

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

UMP.1: 16 residues within 4Å: Chain A: R.40, Y.127, C.187, H.188, Q.215, R.216, S.217, C.218, D.219, G.223, N.227, H.257, Y.259 Chain B: R.167, R.168 Ligands: CB3.2 11 PLIP interactions: 8 interactions with chain A, 3 interactions with chain B Hydrogen bonds: A:Q.215, A:S.217, A:D.219, A:N.227, A:N.227, A:H.257 Salt bridges: A:R.40, A:R.216, B:R.167, B:R.168 Water bridges: B:R.167 UMP.3: 16 residues within 4Å: Chain A: R.167, R.168 Chain B: R.40, Y.127, C.187, H.188, Q.215, R.216, S.217, C.218, D.219, G.223, N.227, H.257, Y.259 Ligands: CB3.4 12 PLIP interactions: 3 interactions with chain A, 9 interactions with chain B Water bridges: A:R.167 Salt bridges: A:R.167, A:R.168, B:R.40, B:R.216 Hydrogen bonds: B:Q.215, B:S.217, B:D.219, B:N.227, B:N.227, B:H.257, B:Y.259

2 x CB3: 10-PROPARGYL-5,8-DIDEAZAFOLIC ACID(Non-covalent)

CB3.2: 15 residues within 4Å: Chain A: F.72, E.79, I.100, W.101, N.104, L.184, D.219, L.222, G.223, F.226, N.227, Y.259, M.315, S.316 Ligands: UMP.1 15 PLIP interactions: 15 interactions with chain A Hydrophobic interactions: A:I.100, A:I.100, A:L.184, A:F.226 Hydrogen bonds: A:D.219, A:S.316, A:S.316 Water bridges: A:R.40, A:K.69, A:G.99, A:I.311 Salt bridges: A:K.69, A:D.219 pi-Stacking: A:W.101, A:F.226 CB3.4: 15 residues within 4Å: Chain B: F.72, E.79, I.100, W.101, N.104, L.184, D.219, L.222, G.223, F.226, N.227, Y.259, M.315, S.316 Ligands: UMP.3 15 PLIP interactions: 15 interactions with chain B Hydrophobic interactions: B:I.100, B:I.100, B:W.101, B:L.184, B:F.226 Hydrogen bonds: B:D.219, B:S.316, B:S.316 Water bridges: B:R.40, B:K.69, B:G.99, B:I.311 Salt bridges: B:K.69, B:D.219 pi-Stacking: B:F.226

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Finer-Moore, J.S. et al., The structure of Cryptococcus neoformans thymidylate synthase suggests strategies for using target dynamics for species-specific inhibition. Acta Crystallogr.,Sect.D (2005)

Release Date

2005-12-06

Peptides

Thymidylate synthase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Thymidylate synthase

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