Clinical Practice Guidelines should be cited as journal articles whenever possible. Most guidelines are published as journal articles before they appear on the website of a professional organization or a drug information database such as UpToDate or Lexicomp.
If you find the guideline on the website of a professional organization, look for a clue as to the article citation. For example, this is how a guideline appears on the website of the IDSA. The article citation information is circled:
You can also try searching for the guideline in PubMed or some other secondary source to get the citation.