I have a shapefile drawn in Selected CRS EPSG 84, when I try to load it in my project in Pulkovo 1995/ Gauss Kruger zone 7, its missplaced, and when i change shapefiles crs in properties, still no change.

im using qgis 2.18.3

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    Check the +wgs84 parameter in the 20007 definition. See if it's there at all, and if it is, does it match the EPSG Registry values for 5043 – mkennedy Jun 29 '17 at 19:20

You can try in OSGeo4W Shell

ogr2ogr -f "ESRI Shapefile" input.shp output.shp -s_srs "EPSG:4326" -t_srs "EPSG:20007"

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