SMTL ID : 4fqs.1

Crystal Structure of Mycobacterium tuberculosis ThyA in complex with UMP and Pemetrexed

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.80 Å

Oligo State

homo-dimer

Ligands

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

UMP.1: 16 residues within 4Å: Chain A: 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 Chain B: R.126, R.127 Ligands: LYA.2 12 PLIP interactions: 9 interactions with chain A, 3 interactions with chain B Hydrogen bonds: A:Q.165, 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 Water bridges: B:R.126 UMP.3: 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: LYA.4 12 PLIP interactions: 9 interactions with chain B, 3 interactions with chain A Hydrogen bonds: B:Q.165, B:S.167, 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 Water bridges: A:R.126

2 x LYA: 2-{4-[2-(2-AMINO-4-OXO-4,7-DIHYDRO-3H-PYRROLO[2,3-D]PYRIMIDIN-5-YL)-ETHYL]-BENZOYLAMINO}-PENTANEDIOIC ACID(Non-covalent)

LYA.2: 14 residues within 4Å: Chain A: H.51, E.58, I.79, W.80, W.83, L.143, D.169, L.172, G.173, F.176, Y.209, V.261, A.262 Ligands: UMP.1 15 PLIP interactions: 15 interactions with chain A Hydrophobic interactions: A:I.79, A:F.176 Hydrogen bonds: A:Y.209, A:A.262, A:A.262, A:A.262 Water bridges: A:S.54, A:T.78, A:T.78, A:V.261 Salt bridges: A:K.48, A:H.51, A:D.169 pi-Stacking: A:W.80, A:F.176 LYA.4: 14 residues within 4Å: Chain B: H.51, E.58, I.79, W.80, W.83, L.143, D.169, L.172, G.173, F.176, Y.209, V.261, A.262 Ligands: UMP.3 14 PLIP interactions: 14 interactions with chain B Hydrophobic interactions: B:I.79, B:F.176, B:V.261 Hydrogen bonds: B:A.262, B:A.262, B:A.262 Water bridges: B:T.78, B:I.79, B:I.257 Salt bridges: B:K.48, B:H.51, B:D.169 pi-Stacking: B:W.80, B:F.176

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
A

B
B

Thymidylate synthase

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