SMTL ID : 6p9k.1

Crystal structure of Mycobacterium tuberculosis KasA in complex with O6G

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.70 Å

Oligo State

homo-dimer

Ligands

2 x NA: SODIUM ION(Non-functional Binders)

NA.1: 6 residues within 4Å: Chain A: N.307, A.308, H.309, E.352, N.397, N.398 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:A.308, A:N.398 NA.9: 6 residues within 4Å: Chain B: N.307, A.308, H.309, E.352, N.397, N.398 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:A.308, B:E.352, B:N.398

10 x IPA: ISOPROPYL ALCOHOL(Non-functional Binders)

IPA.2: 6 residues within 4Å: Chain A: A.213, V.276, A.277, P.278, I.315, F.402 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:I.315, A:F.402 Water bridges: A:T.313 IPA.3: 4 residues within 4Å: Chain A: G.113, L.114 Chain B: M.144, P.145 2 PLIP interactions: 1 interactions with chain A, 1 interactions with chain B Hydrophobic interactions: A:L.114, B:M.144 IPA.4: 2 residues within 4Å: Chain A: D.67, Y.80 2 PLIP interactions: 2 interactions with chain A Water bridges: A:D.67, A:D.67 IPA.5: 1 residues within 4Å: Chain A: R.76 No protein-ligand interaction detected (PLIP) IPA.6: 3 residues within 4Å: Chain A: A.280, D.281, N.322 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:A.280 Hydrogen bonds: A:N.322 IPA.10: 6 residues within 4Å: Chain B: A.213, V.276, A.277, P.278, I.315, F.402 2 PLIP interactions: 2 interactions with chain B Hydrophobic interactions: B:I.315, B:F.402 IPA.11: 4 residues within 4Å: Chain A: M.144, P.145 Chain B: G.113, L.114 2 PLIP interactions: 1 interactions with chain B, 1 interactions with chain A Hydrophobic interactions: B:L.114, A:M.144 IPA.12: 2 residues within 4Å: Chain B: D.67, Y.80 2 PLIP interactions: 2 interactions with chain B Water bridges: B:D.67, B:D.67 IPA.13: 1 residues within 4Å: Chain B: R.76 No protein-ligand interaction detected (PLIP) IPA.14: 3 residues within 4Å: Chain B: A.280, D.281, N.322 2 PLIP interactions: 2 interactions with chain B Hydrophobic interactions: B:A.280 Hydrogen bonds: B:N.322

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.7: 5 residues within 4Å: Chain A: A.16, V.17, I.27, E.28, S.95 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:V.17, A:E.28 Water bridges: A:S.95, A:R.361 GOL.15: 5 residues within 4Å: Chain B: A.16, V.17, I.27, E.28, S.95 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:V.17, B:E.28, B:E.28 Water bridges: B:S.95, B:R.361

2 x O6G: N-(2-cyano-3-methyl-1H-indol-5-yl)butane-1-sulfonamide(Non-covalent)

O6G.8: 12 residues within 4Å: Chain A: G.115, E.118, E.197, G.198, P.199, I.200, E.201, P.204, F.237, H.343, S.344, I.345 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:P.199, A:E.201, A:F.237, A:F.237 Hydrogen bonds: A:E.118, A:E.118, A:E.197 Water bridges: A:Y.80 O6G.16: 12 residues within 4Å: Chain B: G.115, E.118, E.197, G.198, P.199, I.200, E.201, P.204, F.237, H.343, S.344, I.345 8 PLIP interactions: 8 interactions with chain B Hydrophobic interactions: B:P.199, B:E.201, B:F.237, B:F.237 Hydrogen bonds: B:E.118, B:E.197, B:E.197 Water bridges: B:Y.80

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Inoyama, D. et al., A Preclinical Candidate Targeting Mycobacterium tuberculosis KasA. Cell Chem Biol (2020)

Release Date

2020-04-01

Peptides

3-oxoacyl-ACP synthase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

3-oxoacyl-ACP synthase

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