SMTL ID : 3isj.1

Crystal structure of pantothenate synthetase from Mycobacterium tuberculosis in complex with 5-methoxy-N-(methylsulfonyl)-1H-indole-2-carboxamide

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.20 Å

Oligo State

homo-dimer

Ligands

5 x EOH: ETHANOL(Non-functional Binders)

EOH.1: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) EOH.2: 3 residues within 4Å: Chain A: L.114, R.115, T.117 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:T.117 Hydrogen bonds: A:L.114 EOH.3: 3 residues within 4Å: Chain A: T.218 Chain B: H.222, T.225 2 PLIP interactions: 1 interactions with chain B, 1 interactions with chain A Hydrophobic interactions: B:T.225 Hydrogen bonds: A:T.218 EOH.4: 1 residues within 4Å: Chain A: N.176 1 PLIP interactions: 1 interactions with chain A Water bridges: A:L.177 EOH.9: 6 residues within 4Å: Chain B: S.24, R.25, R.28, V.34, V.150, R.151 2 PLIP interactions: 2 interactions with chain B Hydrophobic interactions: B:R.28 Hydrogen bonds: B:S.24

5 x GOL: GLYCEROL(Non-functional Binders)

GOL.5: 9 residues within 4Å: Chain A: M.109, Y.110, P.111, D.112, G.113, L.114, R.115, T.116, K.145 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:D.112, A:D.112, A:R.115, A:K.145, A:K.145 GOL.6: 3 residues within 4Å: Chain A: R.169, Q.170, A.173 3 PLIP interactions: 3 interactions with chain A Water bridges: A:R.169, A:Q.170, A:A.173 GOL.7: 9 residues within 4Å: Chain A: P.38, T.39, M.40, F.67, N.69, Q.72, V.142, L.146 Ligands: A8D.8 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:F.67, A:Q.72 Water bridges: A:F.67 GOL.11: 7 residues within 4Å: Chain B: L.50, F.157, G.158, K.160, D.161, Q.164 Ligands: A8D.13 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:G.158, B:D.161, B:D.161, B:Q.164 GOL.12: 7 residues within 4Å: Chain B: P.38, F.67, Q.72, V.142, L.146, F.157 Ligands: A8D.13 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:F.67, B:Q.72

2 x A8D: 5-methoxy-N-(methylsulfonyl)-1H-indole-2-carboxamide(Non-covalent)

A8D.8: 18 residues within 4Å: Chain A: P.38, T.39, M.40, H.44, G.46, H.47, A.49, L.50, Y.82, G.158, K.160, D.161, V.184, P.185, T.186, V.187, M.195 Ligands: GOL.7 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:K.160, A:M.195 Hydrogen bonds: A:M.40, A:V.187 Water bridges: A:H.44, A:K.160, A:K.160 A8D.13: 15 residues within 4Å: Chain B: P.38, T.39, M.40, H.44, G.46, H.47, L.50, G.158, K.160, P.185, T.186, V.187, M.195 Ligands: GOL.11, GOL.12 5 PLIP interactions: 5 interactions with chain B Hydrophobic interactions: B:K.160, B:T.186 Hydrogen bonds: B:M.40, B:V.187 pi-Stacking: B:H.44

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

SO4.10: 5 residues within 4Å: Chain B: G.244, A.246, R.273, L.274, G.275 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:R.273, B:G.275 Salt bridges: B:R.273

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

2009-10-27

Peptides

Pantothenate synthetase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Pantothenate synthetase

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