- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.23 Å
- Oligo State
- hetero-2-2-mer
- Ligands
- 23 x SO4: SULFATE ION(Non-functional Binders)
- 1 x GOL: GLYCEROL(Non-functional Binders)
- 1 x YMK: (2~{R})-3-bis[2-methyl-5-(trifluoromethyl)pyrazol-3-yl]boranyloxypropane-1,2-diol
- 4 x YLZ: [(2~{R})-2,3-bis(oxidanyl)propoxy]-[2-methyl-5-(trifluoromethyl)pyrazol-3-yl]borinic acid
YLZ.7: 8 residues within 4Å:- Chain A: A.187, Q.188, L.265, Q.268, L.269, A.272, M.274
- Ligands: JXL.10
2 PLIP interactions:2 interactions with chain A- Hydrophobic interactions: A:L.269
- Halogen bonds: A:A.187
YLZ.8: 12 residues within 4Å:- Chain A: M.46, G.83, G.84, D.85, T.88, M.89, V.100, T.103, E.157, F.303
- Ligands: JXL.9, YLN.12
3 PLIP interactions:3 interactions with chain A- Hydrophobic interactions: A:F.303
- Water bridges: A:G.165
- Halogen bonds: A:V.100
YLZ.17: 13 residues within 4Å:- Chain B: M.46, G.83, G.84, D.85, T.88, M.89, V.100, T.103, I.107, E.157, F.303
- Ligands: JXL.20, YLN.23
5 PLIP interactions:5 interactions with chain B- Hydrophobic interactions: B:F.303
- Hydrogen bonds: B:E.157, B:E.157
- Water bridges: B:G.165
- Halogen bonds: B:V.100
YLZ.18: 9 residues within 4Å:- Chain B: A.187, Q.188, L.265, Q.268, L.269, A.272, M.274, G.559
- Ligands: JXL.22
2 PLIP interactions:2 interactions with chain B- Hydrogen bonds: B:G.559
- Halogen bonds: B:A.187
- 8 x JXL: [2-methyl-5-(trifluoromethyl)pyrazol-3-yl]boronic acid
JXL.9: 9 residues within 4Å:- Chain A: A.82, G.83, L.130, G.131, P.156, L.160, F.320
- Ligands: YMK.6, YLZ.8
No protein-ligand interaction detected (PLIP)JXL.10: 6 residues within 4Å:- Chain A: F.182, V.183, A.187, L.265, Q.268
- Ligands: YLZ.7
No protein-ligand interaction detected (PLIP)JXL.11: 4 residues within 4Å:- Chain A: F.176, N.180, S.184, I.200
2 PLIP interactions:2 interactions with chain A- Halogen bonds: A:N.180, A:I.200
JXL.20: 8 residues within 4Å:- Chain B: G.83, L.130, G.131, P.156, L.160, F.320, Q.324
- Ligands: YLZ.17
2 PLIP interactions:2 interactions with chain B- Hydrogen bonds: B:Q.324
- Halogen bonds: B:L.130
JXL.21: 6 residues within 4Å:- Chain B: F.176, N.180, A.181, S.184, V.185, I.200
2 PLIP interactions:2 interactions with chain B- Water bridges: B:S.184, B:S.184
JXL.22: 5 residues within 4Å:- Chain B: F.182, A.187, L.265, Q.268
- Ligands: YLZ.18
1 PLIP interactions:1 interactions with chain B- Hydrophobic interactions: B:Q.268
JXL.31: 10 residues within 4Å:- Chain C: F.91, M.134, F.146, M.299, G.391, G.392
- Chain D: G.67, R.71, A.72, L.75
1 PLIP interactions:1 interactions with chain C- Hydrophobic interactions: C:F.91
JXL.39: 10 residues within 4Å:- Chain C: G.67, R.71, A.72, L.75
- Chain D: F.91, M.134, F.146, M.299, G.391, G.392
3 PLIP interactions:3 interactions with chain D- Hydrophobic interactions: D:F.91
- Water bridges: D:G.131
- pi-Stacking: D:F.146
- 2 x YLN: bis[2-methyl-5-(trifluoromethyl)pyrazol-3-yl]-bis(oxidanyl)boranuide
YLN.12: 12 residues within 4Å:- Chain A: H.7, M.46, N.47, E.48, I.51, D.85, T.88, D.96, D.99, V.100, T.103
- Ligands: YLZ.8
2 PLIP interactions:2 interactions with chain A- Hydrophobic interactions: A:T.88, A:T.103
YLN.23: 13 residues within 4Å:- Chain B: H.7, H.8, M.46, N.47, E.48, I.51, D.85, T.88, D.96, D.99, V.100, T.103
- Ligands: YLZ.17
4 PLIP interactions:4 interactions with chain B- Hydrophobic interactions: B:T.103
- Hydrogen bonds: B:T.88, B:D.99
- Halogen bonds: B:D.96
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Dalwani, S. et al., Crystallographic fragment binding studies of the Mycobacterium tuberculosis trifunctional enzyme suggest binding pockets for the tails of the acyl-CoA substrates at its active sites and a potential substrate channeling path between them. Biorxiv (2024)
- Release Date
- 2024-01-24
- Peptides
- 3-hydroxyacyl-CoA dehydrogenase: AB
Putative acyltransferase Rv0859: CD - SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
BC
CD
D
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.23 Å
- Oligo State
- hetero-2-2-mer
- Ligands
- 23 x SO4: SULFATE ION(Non-functional Binders)
- 1 x GOL: GLYCEROL(Non-functional Binders)
- 1 x YMK: (2~{R})-3-bis[2-methyl-5-(trifluoromethyl)pyrazol-3-yl]boranyloxypropane-1,2-diol
- 4 x YLZ: [(2~{R})-2,3-bis(oxidanyl)propoxy]-[2-methyl-5-(trifluoromethyl)pyrazol-3-yl]borinic acid
- 8 x JXL: [2-methyl-5-(trifluoromethyl)pyrazol-3-yl]boronic acid
- 2 x YLN: bis[2-methyl-5-(trifluoromethyl)pyrazol-3-yl]-bis(oxidanyl)boranuide
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Dalwani, S. et al., Crystallographic fragment binding studies of the Mycobacterium tuberculosis trifunctional enzyme suggest binding pockets for the tails of the acyl-CoA substrates at its active sites and a potential substrate channeling path between them. Biorxiv (2024)
- Release Date
- 2024-01-24
- Peptides
- 3-hydroxyacyl-CoA dehydrogenase: AB
Putative acyltransferase Rv0859: CD - SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
BC
CD
D