If you have a issue there and need to pull out of line you need to pull into the hold area and pivot at a 45 to insure your wings are clear of the Taxiway. I don't think this is written anywhere. Egypt Air probably should have questioned the room available as VA would have been clearly visible. In the end VA parked poorly, Egypt Air should have been more alert and JFK procedures for aircraft holding there are non existent despite limited room. It should be clearly stated aircraft must park at a 45. I'd allocate this incident 50% to JFK and split the other half between the airlines.
I have taxied by this area with narrow bodies pulled in their straight and not angled and it's still tight. Go about 2 knots cheating to the left with the relief pilot glued to the right window watching the wingtip.