SMTL ID : 4ubw.1

Apo structure of the 3-ketoacyl-CoA thiolase FadA5 from M. tuberculosis

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.70 Å

Oligo State

homo-dimer

Ligands

6 x GOL: GLYCEROL(Non-functional Binders)

GOL.1: 4 residues within 4Å: Chain A: G.72, E.73, R.133, V.134 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:E.73 Water bridges: A:E.73, A:R.133 GOL.2: 5 residues within 4Å: Chain A: L.331, A.334, R.335, M.341 Ligands: DMS.6 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:L.331 GOL.3: 5 residues within 4Å: Chain A: A.40, P.203, I.204, Q.205, L.221 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:Q.205, A:Q.205 Water bridges: A:Q.205 GOL.4: 3 residues within 4Å: Chain A: R.169, R.170, Y.294 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:R.169, A:R.170, A:Y.294, A:Y.294 GOL.22: 6 residues within 4Å: Chain B: V.179, F.180, E.183, R.187, M.341 Ligands: CL.34 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:R.187 Water bridges: B:D.176 GOL.23: 2 residues within 4Å: Chain B: W.28, R.220 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:R.220

26 x DMS: DIMETHYL SULFOXIDE(Non-functional Binders)

DMS.5: 8 residues within 4Å: Chain A: F.180, E.183, S.184, R.187, M.341, V.344, N.345 Ligands: DMS.6 Ligand excluded by PLIP DMS.6: 4 residues within 4Å: Chain A: L.331, M.341 Ligands: GOL.2, DMS.5 Ligand excluded by PLIP DMS.7: 6 residues within 4Å: Chain A: W.28, R.220, L.221, V.222, F.223, R.224 Ligand excluded by PLIP DMS.8: 7 residues within 4Å: Chain A: I.314, G.315, I.317, V.320, P.339, D.340, R.343 Ligand excluded by PLIP DMS.9: 5 residues within 4Å: Chain A: N.26, S.30, S.132, R.133, N.213 Ligand excluded by PLIP DMS.10: 3 residues within 4Å: Chain A: D.59, V.270, H.274 Ligand excluded by PLIP DMS.11: 3 residues within 4Å: Chain A: R.186, R.190 Ligands: DMS.18 Ligand excluded by PLIP DMS.12: 2 residues within 4Å: Chain A: R.25, I.256 Ligand excluded by PLIP DMS.13: 2 residues within 4Å: Chain A: P.215, T.216 Ligand excluded by PLIP DMS.14: 7 residues within 4Å: Chain A: R.229, E.230, T.231, T.232, G.235, L.236, L.239 Ligand excluded by PLIP DMS.15: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP DMS.16: 3 residues within 4Å: Chain A: K.309, A.310, G.311 Ligand excluded by PLIP DMS.17: 5 residues within 4Å: Chain A: N.26, G.27, V.208, L.209, R.220 Ligand excluded by PLIP DMS.18: 1 residues within 4Å: Ligands: DMS.11 Ligand excluded by PLIP DMS.19: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP DMS.20: 1 residues within 4Å: Chain A: R.374 Ligand excluded by PLIP DMS.21: 1 residues within 4Å: Chain A: H.91 Ligand excluded by PLIP DMS.24: 6 residues within 4Å: Chain B: W.28, R.220, L.221, V.222, F.223, R.224 Ligand excluded by PLIP DMS.25: 5 residues within 4Å: Chain B: L.182, R.186, Q.189, E.230, T.231 Ligand excluded by PLIP DMS.26: 4 residues within 4Å: Chain A: E.90 Chain B: A.290, E.291, Q.301 Ligand excluded by PLIP DMS.27: 2 residues within 4Å: Chain B: R.186, R.190 Ligand excluded by PLIP DMS.28: 2 residues within 4Å: Chain B: D.340, R.343 Ligand excluded by PLIP DMS.29: 6 residues within 4Å: Chain B: I.314, G.315, I.317, P.339, D.340, R.343 Ligand excluded by PLIP DMS.30: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP DMS.31: 5 residues within 4Å: Chain B: R.229, E.230, T.231, G.235, L.239 Ligand excluded by PLIP DMS.32: 3 residues within 4Å: Chain B: Q.189, L.228, E.230 Ligand excluded by PLIP

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

NA.33: 7 residues within 4Å: Chain A: Q.62, L.114 Chain B: Q.106, H.109, Q.285, A.286, L.287 3 PLIP interactions: 2 interactions with chain B, 1 interactions with chain A Hydrogen bonds: B:H.109, B:L.287, A:Q.62

1 x CL: CHLORIDE ION(Non-functional Binders)

CL.34: 4 residues within 4Å: Chain B: F.180, E.183, R.187 Ligands: GOL.22 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Schaefer, C.M. et al., FadA5 a Thiolase from Mycobacterium tuberculosis: A Steroid-Binding Pocket Reveals the Potential for Drug Development against Tuberculosis. Structure (2015)

Release Date

2014-12-17

Peptides

Acetyl-CoA acetyltransferase FadA5: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Acetyl-CoA acetyltransferase FadA5

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