You may need to file NYS CT-3-S New York S Corporation Franchise Tax Return.
For more information, please see this link: https://www.tax.ny.gov/pdf/current_forms/ct/ct3si.pdf
In addition, in regards to NYC, it would be NYC-4S General Corporation Tax Return.
For more information, please see this link: http://www1.nyc.gov/assets/finance/downloads/pdf/16pdf/business_tax_forms/nyc-4s_instr_2016.pdf
