Non-random usage of 'degenerate' codons is related to protein three-dimensional structure
Non-random usage of 'degenerate' codons is related to protein three-dimensional structure
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DOI：
10.1016/s0014-5793(96)01287-2
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发表时间：
1996-12-09
期刊：
影响因子：
3.5
通讯作者：
Neidle, S
中科院分区：
文献类型：
--
作者：
Adzhubei, AA;Adzhubei, IA;Neidle, S
我们报道了一个新的哺乳动物蛋白质序列-结构数据库的分析，该数据库包含了它们基因外显子区域的核苷酸序列以及蛋白质序列和结构信息。我们发现，同义密码子家族(即编码相同残基)在蛋白质二级结构类型之间具有非随机密码子分布频率。它们的结构偏好与密码子中的第三个“沉默”核苷酸位置有关。我们还发现，一些同义密码子在结构片段的N-端或C-端显示出与其氨基酸残基非常不同甚至相反的结构偏好。
We report an analysis of a novel sequence-structure database of mammalian proteins incorporating nucleotide sequences of the exon regions of their genes together with protein sequence and structural information. We find that synonymous codon families (i.e. coding the same residue) have non-random codon distribution frequencies between protein secondary structure types. Their structural preferences are related to the third, 'silent' nucleotide position in a codon. We also find that some synonymous codons show very different or even opposite structural preferences at the N- or C-termini of structure fragments, relative to those observed for their amino acid residues.