I would use present perfect continuous here; this is the exact situation it's designed for.
Good , I have been running for one hour and I feel exhausted now.
This tense expresses that at some point in the past, you started running. Since then and until now, you still ran, and continue to run in the present.
This requires some form of past tense. You've completed the run, and you are no longer running, so present perfect continuous is out. Any continuous tense that encompasses the present is out, in fact. Past continuous is okay, because it expresses that at some point in the past, you did something for an extended period of time, but it's ended now. Simple past tense is perfectly acceptable as well.
One notable exception is "present perfect" tense. I put the name in scare quotes because the tense doesn't really refer to the present, or at least not usually. It refers to some unspecified time before now. You can use this tense, as well.
Good, I ran for one hour and I feel exhausted now.
Good, I was running for one hour and I feel exhausted now.
Good, I have run for one hour and I feel exhausted now.
Note: "Run" is the past participle form of "run." Yeah, I know.
Past perfect tenses are not necessary here because there is no other event to compare this one to in terms of timeline. We usually use perfect tenses to differentiate events from each other in a timeline. Past perfect would be used if the sentence was worded like this:
Good, I had been running for one hour, then I went into the shop for a bottled water.
This expresses that you ran first, then you went into the shop afterwards. However, both events happened before now. My usage of the word "then" makes it slightly redundant ("then" makes it very clear which event preceded the other), but the principle is the same.
If you met the friend several hours later at a pub, the conversation might go something like this:
Friend: Hey, how was your day?
You: Good. I had been running for an hour earlier, then I felt exhausted.
This works because felt is used instead of feel which places it in the past, which means that now you can use past perfect to express that you ran before you felt exhausted.