SMTL ID : 4fox.4 (3 other biounits)

Crystal Structure of Mtb ThyA in complex with dUMP and Raltitrexed

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.30 Å

Oligo State

homo-dimer

Ligands

2 x D16: TOMUDEX(Non-covalent)

D16.1: 13 residues within 4Å: Chain A: H.51, S.54, E.58, I.79, W.80, W.83, L.143, D.169, L.172, G.173, F.176, Y.209 Ligands: UMP.2 12 PLIP interactions: 12 interactions with chain A Hydrophobic interactions: A:W.80, A:W.83, A:W.83, A:L.143, A:F.176, A:Y.209 Hydrogen bonds: A:S.54, A:D.169 Water bridges: A:K.48 Salt bridges: A:K.48, A:H.51 pi-Stacking: A:F.176 D16.3: 12 residues within 4Å: Chain B: H.51, S.54, E.58, I.79, W.80, W.83, D.169, L.172, G.173, F.176, Y.209 Ligands: UMP.4 13 PLIP interactions: 13 interactions with chain B Hydrophobic interactions: B:I.79, B:I.79, B:W.83, B:W.83, B:F.176, B:F.176, B:Y.209 Hydrogen bonds: B:S.54, B:D.169 Salt bridges: B:K.48, B:H.51 pi-Stacking: B:W.80, B:F.176

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

UMP.2: 16 residues within 4Å: Chain A: R.21, L.143, C.146, H.147, Q.165, R.166, S.167, A.168, D.169, G.173, N.177, H.207, Y.209 Chain B: R.126, R.127 Ligands: D16.1 12 PLIP interactions: 10 interactions with chain A, 2 interactions with chain B Hydrogen bonds: A:Q.165, A:S.167, A:S.167, A:D.169, A:N.177, A:N.177, A:H.207, A:Y.209 Salt bridges: A:R.21, A:R.166, B:R.126, B:R.127 UMP.4: 16 residues within 4Å: Chain A: R.126, R.127 Chain B: R.21, Y.94, C.146, H.147, Q.165, R.166, S.167, A.168, D.169, G.173, N.177, H.207, Y.209 Ligands: D16.3 10 PLIP interactions: 8 interactions with chain B, 2 interactions with chain A Hydrogen bonds: B:Q.165, B:S.167, B:D.169, B:N.177, B:N.177, B:H.207 Salt bridges: B:R.21, B:R.166, A:R.126, A:R.127

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Reddy, M.C.M. et al., Crystal structure of binary and ternary complexes of thymidylate synthase (ThyA) from Mycobacterium tuberculosis: Insights into the selectivity and mode of inhibition. To be Published

Release Date

2013-08-07

Peptides

Thymidylate synthase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
G

B
H

Thymidylate synthase

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