SMTL ID : 2wge.1

Crystal structure of KasA of Mycobacterium tuberculosis with bound TLM

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.80 Å

Oligo State

homo-dimer

Ligands

14 x GOL: GLYCEROL(Non-functional Binders)

GOL.1: 3 residues within 4Å: Chain A: G.92, Q.93, E.96 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:E.96 Water bridges: A:G.92, A:S.97 GOL.2: 5 residues within 4Å: Chain A: A.18, V.19, E.30, L.262, R.363 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:V.19, A:V.19, A:R.363 GOL.3: 4 residues within 4Å: Chain A: F.275, A.281, A.282, D.283 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:A.282, A:D.283 GOL.4: 5 residues within 4Å: Chain A: W.95, P.101, E.102, V.103, L.158 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:V.103, A:V.103, A:Q.157 GOL.5: 10 residues within 4Å: Chain A: E.199, G.200, P.201, I.202, E.203, P.206, F.239, H.345, S.346, I.347 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:P.201, A:E.203 GOL.6: 3 residues within 4Å: Chain A: P.27, D.28, Q.93 4 PLIP interactions: 4 interactions with chain A Water bridges: A:T.20, A:Q.93, A:S.97, A:S.97 GOL.9: 4 residues within 4Å: Chain A: D.283, V.285, R.286 Chain B: R.161 4 PLIP interactions: 2 interactions with chain B, 2 interactions with chain A Water bridges: B:D.106, B:D.106, A:R.286 Hydrogen bonds: A:D.283 GOL.11: 3 residues within 4Å: Chain B: G.92, Q.93, E.96 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:E.96 Water bridges: B:H.71, B:G.92, B:S.97 GOL.12: 5 residues within 4Å: Chain B: A.18, V.19, E.30, L.262, R.363 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:V.19, B:V.19, B:E.30, B:R.363 GOL.13: 4 residues within 4Å: Chain B: F.275, A.281, A.282, D.283 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:A.282, B:D.283 GOL.14: 5 residues within 4Å: Chain B: W.95, P.101, E.102, V.103, L.158 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:V.103, B:V.103, B:Q.157 GOL.15: 10 residues within 4Å: Chain B: E.199, G.200, P.201, I.202, E.203, P.206, F.239, H.345, S.346, I.347 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:P.201, B:E.203 GOL.16: 3 residues within 4Å: Chain B: P.27, D.28, Q.93 4 PLIP interactions: 4 interactions with chain B Water bridges: B:T.20, B:Q.93, B:S.97, B:S.97 GOL.19: 4 residues within 4Å: Chain A: R.161 Chain B: D.283, V.285, R.286 4 PLIP interactions: 2 interactions with chain A, 2 interactions with chain B Water bridges: A:D.106, A:D.106, B:R.286 Hydrogen bonds: B:D.283

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

IPA.7: 4 residues within 4Å: Chain A: M.213, T.315, I.317 Ligands: TLM.8 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:T.315 IPA.17: 4 residues within 4Å: Chain B: M.213, T.315, I.317 Ligands: TLM.18 No protein-ligand interaction detected (PLIP)

2 x TLM: THIOLACTOMYCIN(Non-covalent)

TLM.8: 14 residues within 4Å: Chain A: C.171, F.237, V.278, A.279, P.280, H.311, T.313, T.315, H.345, F.402, G.403, F.404, G.406 Ligands: IPA.7 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:F.237, A:P.280, A:P.280, A:T.313, A:F.404, A:F.404 Hydrogen bonds: A:T.315 TLM.18: 14 residues within 4Å: Chain B: C.171, F.237, V.278, A.279, P.280, H.311, T.313, T.315, H.345, F.402, G.403, F.404, G.406 Ligands: IPA.17 6 PLIP interactions: 6 interactions with chain B Hydrophobic interactions: B:F.237, B:P.280, B:P.280, B:T.313, B:F.404, B:F.404

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

NA.10: 6 residues within 4Å: Chain A: N.309, A.310, H.311, E.354, N.399, N.400 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:E.354, A:N.400 NA.20: 6 residues within 4Å: Chain B: N.309, A.310, H.311, E.354, N.399, N.400 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:E.354, B:N.400, B:N.400

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Luckner, S.R. et al., Crystal Structures of Mycobacterium Tuberculosis Kasa Show Mode of Action within Cell Wall Biosynthesis and its Inhibition by Thiolactomycin. Structure (2009)

Release Date

2009-07-21

Peptides

3-OXOACYL-[ACYL-CARRIER-PROTEIN] SYNTHASE 1: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

3-OXOACYL-[ACYL-CARRIER-PROTEIN] SYNTHASE 1

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