SMTL ID : 3img.2 (1 other biounit)

Crystal Structure of Mycobacterium Tuberculosis Pantothenate Synthetase at 1.8 Ang resolution in a ternary complex with fragment compounds 5-methoxyindole and 1-benzofuran-2-carboxylic acid

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.80 Å

Oligo State

homo-dimer

Ligands

2 x BZ2: 1-benzofuran-2-carboxylic acid(Non-covalent)

BZ2.1: 10 residues within 4Å: Chain A: P.39, T.40, M.41, H.48, V.143, V.144, F.158, Q.165 Ligands: BZ3.2, SO4.3 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:P.39, A:V.143, A:V.144, A:F.158 Hydrogen bonds: A:M.41 Salt bridges: A:H.48 BZ2.8: 9 residues within 4Å: Chain B: P.39, T.40, M.41, H.48, V.140, V.144, Q.165 Ligands: BZ3.9, SO4.10 6 PLIP interactions: 6 interactions with chain B Hydrophobic interactions: B:P.39, B:M.41, B:V.140, B:V.144 Hydrogen bonds: B:M.41 Salt bridges: B:H.48

2 x BZ3: 5-methoxy-1H-indole(Non-covalent)

BZ3.2: 13 residues within 4Å: Chain A: H.45, G.47, H.48, L.51, G.159, K.161, V.185, P.186, T.187, V.188, M.196 Ligands: BZ2.1, SO4.3 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:K.161 Hydrogen bonds: A:K.161, A:K.161, A:V.188 Water bridges: A:K.161 pi-Stacking: A:H.45 BZ3.9: 13 residues within 4Å: Chain B: H.45, G.47, H.48, L.51, G.159, K.161, V.185, P.186, T.187, V.188, M.196 Ligands: BZ2.8, SO4.10 5 PLIP interactions: 5 interactions with chain B Hydrophobic interactions: B:K.161, B:T.187 Hydrogen bonds: B:V.188 Water bridges: B:K.161 pi-Stacking: B:H.45

3 x SO4: SULFATE ION(Non-functional Binders)

SO4.3: 8 residues within 4Å: Chain A: H.45, H.48, K.161, M.196, S.197, S.198 Ligands: BZ2.1, BZ3.2 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:S.198 Salt bridges: A:H.45, A:H.48, A:K.161 SO4.4: 2 residues within 4Å: Chain A: P.112, D.113 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:P.112, A:D.113 SO4.10: 7 residues within 4Å: Chain B: H.45, K.161, M.196, S.197, S.198 Ligands: BZ2.8, BZ3.9 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:S.198, B:S.198 Salt bridges: B:H.45, B:K.161

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.5: 9 residues within 4Å: Chain A: M.110, Y.111, P.112, D.113, G.114, L.115, R.116, T.117, K.146 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:D.113, A:R.116, A:K.146, A:K.146

2 x EOH: ETHANOL(Non-functional Binders)

EOH.6: 3 residues within 4Å: Chain A: L.115, R.116, T.118 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:T.118 Hydrogen bonds: A:L.115 EOH.7: 4 residues within 4Å: Chain A: A.216, T.219 Chain B: H.223, T.226 2 PLIP interactions: 1 interactions with chain B, 1 interactions with chain A Hydrophobic interactions: B:T.226 Hydrogen bonds: A:T.219

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Hung, A.W. et al., Application of fragment growing and fragment linking to the discovery of inhibitors of Mycobacterium tuberculosis pantothenate synthetase. Angew.Chem.Int.Ed.Engl. (2009)

Release Date

2009-10-13

Peptides

Pantothenate synthetase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Pantothenate synthetase

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