AFMAN 11-217 Vol. 1 said:
7.13.5.3. In the event of differences between the terminal procedure chart or approach chart and database, the published approach chart, supplemented by NOTAMs, holds precedence and the database may not be used to fly terminal area or instrument approach procedures except as noted below.
7.13.5.3.1. In some cases, waypoints in the navigation database may differ from the charted instrument procedure. The differences listed below are acceptable and do not preclude use of the database procedure.
7.13.5.3.1.1. Step down fixes depicted on the approach chart may not be contained in the aircraft database. Pilots are responsible for ensuring compliance with applicable step down fixes regardless of whether or not they are in the aircraft database.
7.13.5.3.1.2. The database may contain some waypoints (capture fixes,
and a point in lieu of a FAF for non-FAF overlay approaches) that are not depicted on the approach chart.
7.13.5.3.2. For GPS overlay approaches, certain unnamed points and fixes appearing on a chart are assigned a database identifier.
7.13.5.3.2.1. NOTE: These database identifiers should not be used for pilot/controller communications or on flight plans.
7.13.5.3.3. Small differences may exist in distances between waypoints. Differences less than 0.3nm are acceptable for GPS overlay approaches. For stand-alone GPS and RNAV approaches, the maximum allowable difference is 0.1nm. If distance information varies by more than these tolerances, the procedure shall not be flown.
7.13.5.3.4. Computation of the GPS final approach course is based on the station magnetic variation retrieved from the aircraft magnetic variation database. Many aircraft have a non-updateable magnetic variation database, thus will be almost guaranteed to be different from actual magnetic variation. This will cause a difference between the displayed GPS final approach course and the charted final approach course in the IAP. The discrepancy between displayed and charted magnetic variation will depend on discrepancy between aircraft magnetic variation database (age of database) vs. magnetic variation upon which charted approach course is based (date of magnetic variation survey). Variation between charted final approach course in the IAP and the final approach course computed by the aircraft should be no more than 5 degrees. If the two differ by more than 5 degrees, the procedure is not authorized.