Kyoto is on the main JR Tokaido/Sanyo Shinkansen (bullet train) Line, which connects Tokyo, Nagoya, Kyoto, Osaka, Kobe, Himeji, Hiroshima and points west.
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The Japan Rail Pass is valid for West JR Bus company, which operates the Takao Keihoku Line. This line runs between Kyoto station and Shuzan. You will be able to go to Ninnaji Temple and Ryoanji Temple.
The JR Pass covers all JR network express, fast and local trains. Shinkansen high-speed trains are also covered, including NOZOMI and MIZUHO services with the purchase of a special ticket (from October 2023).
Aside from cash, the following methods of payment are available: One-Day Ticket (such as the Subway & Bus 1-Day Pass)IC Card (such as PiTaPa, ICOCA, Suica, & PASMO)
All entry points for the Shinkansen platforms are on the south side of the station. The Shinkansen Central Gate, the Shinkansen Hachijo Gate, and the Shinkansen Hachijo East Gate give you direct access to the shinkansen tracks.
The JR pass is only worth it if you travel through different cities, if you are just travelling to Tokyo to Kyoto for example, I would just pay on the Suica. You can do the online calculator or just use google to calculate which trip is easier - paying individually on Suica or getting a JR Pass.
The Suica card can be used in the majority of Japanese public transport: subways, buses and all local trains, as well as in buses and taxis displaying the Suica logo. Please note that the Suica card does not work on express trains, shinkansen, highway buses or airport shuttles.
For a limited time only, you can buy a Japan Rail Pass from certain train stations and airports in Japan. Travelers should be aware it is more expensive to buy a JR Pass in Japan than to purchase the pass online.