- The 2007 Honda XR650R was powered by a dry-sump 649cc liquid-cooled engine that weighed 88 lbs. The XR650R had a single overhead camshaft (SOHC) valve train design with a bore and stroke of 3.94 inches by 3.25 inches. Any engine with a bore measurement greater than its stroke measurement is described as an "oversquare" engine.
- The front of the 2007 XR650R was fitted with a 1.81-inch Kayaba cartridge fork that offered 11.2 inches of travel, while the rear sported a Kayaba single shock that gave 12.1 inches of travel. Both the front and back Kayaba components had adjustable compression and rebound damping.
- The 2007 XR650R had front and rear 9.45-inch stainless steel rotors. The front brake operated through the stopping action of a twin-piston caliper. In the rear, a single-piston caliper squeezed the brake rotor to bring the bike to a stop.
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