VeloPro: A pipeline integrating Ribo-seq and AlphaFold deciphers association patterns between translation velocity and protein structure features

被引：1

作者：

Bian, Bian ^{[1
,2
]}

Kumagai, Toshitaka ^{[3
]}

Saito, Yutaka ^{[1
,2
,4
,5
]}

机构：

[1] Univ Tokyo, Grad Sch Frontier Sci, Dept Computat Biol & Med Sci, Kashiwa, Japan

[2] Natl Inst Adv Ind Sci & Technol, Artificial Intelligence Res Ctr, Koto Ku, Tokyo 1350064, Japan

[3] Fermlab Inc, Koto Ku, Tokyo, Japan

[4] AIST Waseda Univ, Computat Bio Big Data Open Innovat Lab CBBD OIL, Shinjuku Ku, Tokyo, Japan

[5] Kitasato Univ, Sch Frontier Engn, Dept Data Sci, Sagamihara, Japan

来源：

IMETA | 2023年 / 2卷 / 04期

关键词：

CODON USAGE INFLUENCES; MESSENGER-RNA; ELONGATION; EFFICIENCY; DYNAMICS; PROLINE; MOTIFS; FOOTPRINT; REGIONS;

D O I：

10.1002/imt2.148

中图分类号：

Q93 [微生物学];

学科分类号：

071005 ; 100705 ;

摘要：

VeloPro integrates Ribo-seq data and AlphaFold2-predicted 3D protein structure information for characterization of the association patterns between translation velocity and many protein structure features in prokaryotic and eukaryotic organisms across different taxonomical clades such as bacteria, fungi, protozoa, nematode, plants, insect, and mammals. We illustrated that association patterns between translation velocity and protein structure features differ across organisms, partially reflecting their taxonomical relationship. image

引用

页数：11