Hey Theo,
I am not familiar with that system. Hmm, was that an opendap service? I am afraid to say that I do not know who to contact to make the original h5 files on the source url link you provided.
I see that the MOD13Q1.061 files on the OPenDAP end point url I provided
are in an aggregation (ncml), as opposed to the .h5 files that you were accessing data originally, and the file hierarchy has been flattened (to support client APIs that do not support that behavior). That may break your workflow.
If you decide to give it a try, you can request to download some data using OPeNDAP’s Data Request Form as download as nc4. NOTE: Since these files are aggregated (each files covers 582 time units), you may hit a download limit imposed by NASA if you attempt to download each ncml file on its entirety (NASA currently imposes a MAX 2GB per download request). To avoid this you may want to limit the number of variables and the time range to avoid hitting the limit per request.
Apologies for not being able to help restoring your preferred endpoint service on your original URL.