Intruderone
I think the company is only following the law of the land process of TDS (Tax deducted at source). If I am not mistaken it is the same in the USA where your employer makes all statutory deductions from your pay slip and gives you a summary every week/month and then gives you a form to file end of the year with your taxes. Your applicable tax is based on how you structure your pay with them in consultation with a tax consultant to best suit you.
Much like the USA standard deductions etc are permitted and a very similar tax code. If one is working in a country it is by choice and after full disclosure and it is therefore their duty to obey the laws of the land thereafter which includes paying tax as stipulated.
Considering you are USA based what would your tax and statutory deductions be on a monthly pay of of $13,000 in a similar position?