M. tuberculosis ClpC1-NTD complexed with a click chemistry analog of Rufomycin
2-Gaussian fit: Grosse-Kunstleve RW, Sauter NK, Adams PD: Newsletter of the IUCr Commission on Crystallographic Computing 2004, 3, 22-31.
Unique Interactions of Novel Rufomycin "Click Chemistry" Analogs with Mtb ClpC1 and Implications.
High-Resolution Structure of ClpC1-Rufomycin and Ligand Binding Studies Provide a Framework to Design and Optimize Anti-Tuberculosis Leads.
ATP-dependent Clp protease ATP-binding subunit ClpC1
The click chemistry analog of Rufomycin is a covalently bonded cyclic dimer from two asymmetric units, through CE2 atom of A1AMB (triazole-containing) residue in one ASU, to CE atom of NLE residue in the other ASU which is not modeled. The last CE atom of NLE was not modeled because -without being covalently bounded- would result in interatomic 'clashes' upon refinement. The final 2Fo-Fc and Fo-Fc calculated with the final refined coordinates show clear evidence for the additional atom (Fo-Fc, positive peak) and also continuous density in the 2Fo-Fc map connecting the two parts of the dimer. The model presented in the asymmetric unit is half of the molecule with a missing carbon atom. The full SMILES string of the molecule is O=C(N(C)[C@H](C(N[C@H](C(N[C@@H](CCCCC1=CN(C[C@H](NC([C@H](CC(C)C)N2C([C@@H]3CCC2)=O)=O)C(N[C@H](C(N(C)[C@H](C(N[C@H](C(N[C@@H](CCCCC4=CN(C5)N=N4)C(N3C)=O)=O)C)=O)CC(C)C)=O)CC6=CN(C(C)(C)C=C)C7=C6C=CC=C7)=O)N=N1)C(N8C)=O)=O)C)=O)CC(C)C)[C@@H](NC([C@H]5NC([C@H](CC(C)C)N9C([C@@H]8CCC9)=O)=O)=O)CC%10=CN(C(C)(C)C=C)C%11=C%10C=CC=C%11
MFERFTDRARRVVVLAQEEARMLNHNYIGTEHILLGLIHEGEGVAAKSLESLGISLEGVRSQVEEIIGQGQQAPSGHIPF TPRAKKVLELSLREALQLGHNYIGTEHILLGLIREGEGVAAQVLVKLGAELTRVRQQVIQLLSGYKLAAALEHHHHHH
22% PEG 3K 0.2M calcium acetate 0.1M Bis-Tris pH 6.5
National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID)
6cn8 contains the first ClpC1-NTD-Rufomycin complex
6pbs contains the structure of ClpC1-NTD with another cyclo-peptide of interest
The biological assembly contains two ClpC1-NTD and a click chemistry analog of Rufomycin, which is a covalently bonded cyclic dimer from two asymmetric units, through CE2 atom of A1AMB (triazole-containing) residue in one ASU, to CE atom of NLE residue in the other ASU which is not modeled. The last CE atom of NLE was not modeled because -without being covalently bounded- would result in interatomic 'clashes' upon refinement. The final 2Fo-Fc and Fo-Fc calculated with the final refined coordinates show clear evidence for the additional atom (Fo-Fc, positive peak) and also continuous density in the 2Fo-Fc map connecting the two parts of the dimer.
M. tuberculosis, ClpC1, Rufomycin, Click-Chemistry, ANTIBIOTIC
MFERFTDRARRVVVLAQEEARMLNHNYIGTEHILLGLIHEGEGVAAKSLESLGISLEGVRSQVEEIIGQGQQAPSGHIPF TPRAKKVLELSLREALQLGHNYIGTEHILLGLIREGEGVAAQVLVKLGAELTRVRQQVIQLLSGY