I want to specifically block a GPCR on cell membrane (also has mitochondrial distribution), but all commercially avaible drugs are cell permeable. therefore, I was seeking to use antibody to block the GPCR located at the cell surface. The antibody i used can identify the protein by surface staining during flow cytometry and also can pull down my target protein by immunoprocipitation, does that means this antibody can block the extracelluar region of this protein and be used for my purpose?
It is possible that it can be used for this purpose. If I am understanding correctly, you will likely need to search the literature to find an antibody clone which specifically blocks the extracellular binding pocket, search through commercially available clone descriptions about epitopes which may block the binding pocket, or use trial-and-error to test antibodies that could block the GPCR. The one which you describes might work since it is apparently targeting the extracellular region of GPCR, but you'd need to test it to find out. If you test your antibody and find that it does not block GPCR, it most likely means that the antibody is binding another region of GPCR that's farther away from the binding pocket.
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