The Stereochemical Basis of Template Function

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Abstract
The behavior of nucleotides with thioketo-substituted pyrimidine bases (4-thiouracil,2-thiouracil and 2-thiocytosine) or amino-analog purine bases (2-aminopurine and 2,6-diaminopurine) in transcription and translation was investigated. The stereochemical basis of substrate selection in transcription is the geometry of Watson-Crick base pairs A.cntdot.U (or A.cntdot.T) and G.cntdot.C between substrate and template bases. The topology of the active site of Escherichia coli RNA polymerase [EC 2.7.7.6] is precisely adopted to the geometry of Watson-Crick base pairs. The enzyme active site discriminates between A.cntdot.U (A.cntdot.T) and G.cntdot.C base pairs. An essential feature in this discrimination is the 6-NH2 group of the A.cntdot.U (A.cntdot.T) base pair and the 2-keto group of cytosine in the G.cntdot.C base pair. The codon properties of a nucleic acid base in mRNA can be predicted on the basis of its specificity in polynucleotide interactions. There seems to be no evidence for the participation of protein topological sites in the control of the specificity of codon-anticodon interactions in translation.

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