Tuberculosis (TB) is caused by Mycobacterium tuberculosis, and remains a major, worldwide health concern. The emergence of M. tuberculosis strains that are resistant to front line antimicrobacterial drugs such as isoniazid and rifampicin have greatly complicated efforts to control the spread of TB. Of the various resistance mechanisms, the most effective involves the production of β-lactamases that hydrolyze β-lactam antibiotics. One approach to overcoming resistance to β-lactam antibiotics is to find new drugs or additives that can prevent the β-lactam antibiotic from being hydrolyzed by β-lactamases. The spectrum of anti-TB drugs consisting of non β-lactam scaffolds has been expanded by the development of new boronic acid derivatives and cationic peptidic inhibitors that proved effective in neutralizing bacterial resistance, especially when administered in combination with antibiotics. The intrinsic resistance to β-lactam antibiotics was due mainly to the presence of a chromosomally-encoded gene (blaC) in M. tuberculosis for a Class A, Ambler β-lactamase (BlaC). The BlaC enzyme has already been validated as one of the leading targets of tuberculosis therapy. In the search for new β-lactamase inhibitors we employed the on-line server Pharmit (pharmit.csb.pitt.edu) to discover new 3-D pharmacophores and search different databases of chemical libraries, and commercial compounds. Autodock Vina was employed to perform molecular docking of selected compounds from ChEMBL/ MolPort/ZINC databasesusingthe M. tuberculosis β-lactamase 3M6B.pdb as the target protein. This combination of 3-D pharmacophore screening and molecular docking lead to the discovery of natural products, and novel, small molecules inhibitors of Y-49β-lactamase from Mycobacterium tuberculosis. Notably new 3D-pharmacophores derived from hydroxyphenylglycine and fragments from the family of biphenyls, aromatic ketones, and stilbenes emerged as potential inhibitors of the recombinant Y-49 β-lactamase exhibiting in vitro inhibitory constants (Ki), in the low 5uM-200uM range. These newly discovered pharmacophore features enabled by in silico screening are extending the chemical space for discovery of novel and potent inhibitors of β-lactamases.