When I think of "proto punk" though (as a genre of music), I don't think of those 60's punk groups (aka garage rock groups) at all. I think "60's punk" and "proto punk" are two separate things.
"Proto punk" are groups that formed BEFORE the Ramones that had a heavy influence on what would become THE 70's punk sound. ex- Stooges, Mc5, Velvet Underground, etc. To my ears, those bands do NOT fit in with the sound of those Nuggets and Pebbles groups though.
"60s' punk" (or Punk Rock, in the early 70's Dave Marsh sense of the term) is, to me, strictly the young groups that were influenced by the rawer sounds of the british invasion. Ex- bands on Nuggets, BackfromtheGrave, Teenage Shutdown comps, etc. I figured critics started referring to "60's punk" as "garage rock" to make things less confusing. So basically, 60's punk and garage rock are the same thing.
Another example...I would consider the Stooges "proto punk", but i'd consider the Iguanas "60's punk". In terms of the Mc5, maybe their first single (with the THEM cover on it) would be 60's punk, but by Kick Out the Jams, that's total Proto Punk.
...I know I'm just splitting hairs here...I know "punk" has been used to describe everything from Cooper to the Bay City Rollers eventually...and some groups could even fit into both categories (like the Monks)...
...but it's all for the sake of discussion. Good rock'n'roll is good rock'n'roll, of course :P
...and according to those BFTG comps, those groups are called "garage punk"...which makes even less sense to me, and makes things even more confusing for everyone, including myself!