narf, you're missing my point I think.
Evolution doesn't work on the chemical level. (well, not in the sense biologists are talking about)
Move up to organisms and populations. There you CAN get intelligence supported by natural selection- if it results in the intelligent variant having more offspring or surving better.
Whether the indivudual molecules or atoms have intelligence is irrelevet; intelligence is an emergant property, like a heartbeat, breathing etc. Looking at one cell, you couldn't predict it. Take a human heart cell by itself, and it would be a sad, useless critter. Link it up with other, differently specialized cells though, and you've got something useful.