6OI9
Crystal Structure of E. coli Biotin Carboxylase Complexed with 7-[3-(aminomethyl)pyrrolidin-1-yl]-6-(2,6-dichlorophenyl)pyrido[2,3-d]pyrimidin-2-amine
Summary for 6OI9
| Entry DOI | 10.2210/pdb6oi9/pdb |
| Descriptor | Biotin carboxylase, 7-[(3S)-3-(aminomethyl)pyrrolidin-1-yl]-6-(2,6-dichlorophenyl)pyrido[2,3-d]pyrimidin-2-amine, 1,2-ETHANEDIOL, ... (4 entities in total) |
| Functional Keywords | atp grasp, carboxylase, biotin carboxyl carrier protein and carboxyltransferase, ligase |
| Biological source | Escherichia coli UMNK88 |
| Total number of polymer chains | 2 |
| Total formula weight | 104080.80 |
| Authors | Andrews, L.D.,Kane, T.R.,Dozzo, P.,Haglund, C.M.,Hilderbrandt, D.J.,Linsell, M.S.,Machajewski, T.,McEnroe, G.,Serio, A.W.,Wlasichuk, K.B.,Neau, D.B.,Pakhomova, S.,Waldrop, G.L.,Sharp, M.,Pogliano, J.,Cirz, R.,Cohen, F. (deposition date: 2019-04-09, release date: 2019-07-31, Last modification date: 2023-10-11) |
| Primary citation | Andrews, L.D.,Kane, T.R.,Dozzo, P.,Haglund, C.M.,Hilderbrandt, D.J.,Linsell, M.S.,Machajewski, T.,McEnroe, G.,Serio, A.W.,Wlasichuk, K.B.,Neau, D.B.,Pakhomova, S.,Waldrop, G.L.,Sharp, M.,Pogliano, J.,Cirz, R.T.,Cohen, F. Optimization and Mechanistic Characterization of Pyridopyrimidine Inhibitors of Bacterial Biotin Carboxylase. J.Med.Chem., 62:7489-7505, 2019 Cited by PubMed Abstract: A major challenge for new antibiotic discovery is predicting the physicochemical properties that enable small molecules to permeate Gram-negative bacterial membranes. We have applied physicochemical lessons from previous work to redesign and improve the antibacterial potency of pyridopyrimidine inhibitors of biotin carboxylase (BC) by up to 64-fold and 16-fold against and , respectively. Antibacterial and enzyme potency assessments in the presence of an outer membrane-permeabilizing agent or in efflux-compromised strains indicate that penetration and efflux properties of many redesigned BC inhibitors could be improved to various extents. Spontaneous resistance to the improved pyridopyrimidine inhibitors in occurs at very low frequencies between 10 and 10. However, resistant isolates had alarmingly high minimum inhibitory concentration shifts (16- to >128-fold) compared to the parent strain. Whole-genome sequencing of resistant isolates revealed that either BC target mutations or efflux pump overexpression can lead to the development of high-level resistance. PubMed: 31306011DOI: 10.1021/acs.jmedchem.9b00625 PDB entries with the same primary citation |
| Experimental method | X-RAY DIFFRACTION (2.06 Å) |
Structure validation
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