Absolutely. The courts made that quite clear recently.
Before somebody leaps to their feet and tries to make out that we are defending people being beastly to gay people in the workplace, let me deal with this important point and make a statement of the obvious: protecting freedom of conscience does not mean protecting the freedom to be beastly to anybody. Equality law protects sexual orientation, gender, race and belief, but no one would say it provides for the right to be horrid to people who disagree with on any of these things, so there is no danger of that happening with new clause 6.