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| RaacFold: a webserver for 3D visualization and analysis of protein structure by using reduced amino acid alphabets | |
| Zheng, Lei; Liu, Dongyang1,2; Li, Yuan Alex3; Yang, Siqi; Liang, Yuchao; Xing, Yongqiang4,5; Zuo, Yongchun | |
| 2022 | |
| 发表期刊 | NUCLEIC ACIDS RESEARCH
 |
| ISSN | 0305-1048 |
| 卷号 | 50期号:W1页码:W633-W638 |
| 摘要 | Protein structure exhibits greater complexity and diversity than DNA structure, and usually affects the interpretation of the function, interactions and biological annotations. Reduced amino acid alphabets (Raaa) exhibit a powerful ability to decrease protein complexity and identify functional conserved regions, which motivated us to create RaacFold. The RaacFold provides 687 reduced amino acid clusters (Raac) based on 58 reduction methods and offers three analysis tools: Protein Analysis, Align Analysis, and Multi Analysis. The Protein Analysis and Align Analysis provide reduced representations of sequence-structure according to physicochemical similarities and computational biology strategies. With the simplified representations, the protein structure can be viewed more concise and clearer to capture biological insight than the unreduced structure. Thus, the design of artificial protein will be more convenient, and redundant interference is avoided. In addition, Multi Analysis allows users to explore biophysical variation and conservation in the evolution of protein structure and function. This supplies important information for the identification and exploration of the nonhomologous functions of paralogs. Simultaneously, RaacFold provides powerful 2D and 3D rendering performance with advanced parameters for sequences, structures, and related annotations. RaacFold is freely available at http://bioinfor.imu.edu.cn/raacfold. [GRAPHICS] . |
| 学科领域 | Biochemistry & Molecular Biology |
| DOI | 10.1093/nar/gkac415 |
| 收录类别 | SCI |
| 语种 | 英语 |
| WOS关键词 | SUBSTITUTION MATRICES ; VIEWER |
| WOS研究方向 | Science Citation Index Expanded (SCI-EXPANDED) |
| WOS记录号 | WOS:000805321900001 |
| 出版者 | OXFORD UNIV PRESS |
| 文献子类 | Article |
| 出版地 | OXFORD |
| EISSN | 1362-4962 |
| 资助机构 | National Nature Scientific Foundation of China [62061034, 62171241, 61861036, 62161039] ; key technology research program of Inner Mongolia Autonomous Region [2021GG0398] ; Science and Technology Major Project of InnerMongolia Autonomous Region of China [2019ZD031] |
| 作者邮箱 | xingyongqiang1984@163.com ; yczuo@imu.edu.cn |
| 作品OA属性 | Green Published |
| 引用统计 | |
| 文献类型 | 期刊论文 |
| 条目标识符 | http://ir.ibcas.ac.cn/handle/2S10CLM1/28702 |
| 专题 | 中科院光生物学重点实验室 |
| 作者单位 | 1.Inner Mongolia Univ, Coll Life Sci, State Key Lab Reprod Regulat & Breeding Grassland, Hohhot 010070, Peoples R China 2.Chinese Acad Sci, Inst Bot, Photosynthesis Res Ctr, Key Lab Photobiol, Beijing 100093, Peoples R China 3.Univ Chinese Acad Sci, Beijing 100049, Peoples R China 4.WorkFus Inc, New York, NY 10005 USA 5.Inner Mongolia Univ Sci & Technol, Sch Life Sci & Technol, Inner Mongolia Key Lab Funct Genome Bioinformat, Baotou 014010, Peoples R China 6.Univ Texas Dallas, Dept Biol Sci, Ctr Syst Biol, Dallas, TX 75080 USA |
| 推荐引用方式 GB/T 7714 | Zheng, Lei,Liu, Dongyang,Li, Yuan Alex,et al. RaacFold: a webserver for 3D visualization and analysis of protein structure by using reduced amino acid alphabets[J]. NUCLEIC ACIDS RESEARCH,2022,50(W1):W633-W638. |
| APA | Zheng, Lei.,Liu, Dongyang.,Li, Yuan Alex.,Yang, Siqi.,Liang, Yuchao.,...&Zuo, Yongchun.(2022).RaacFold: a webserver for 3D visualization and analysis of protein structure by using reduced amino acid alphabets.NUCLEIC ACIDS RESEARCH,50(W1),W633-W638. |
| MLA | Zheng, Lei,et al."RaacFold: a webserver for 3D visualization and analysis of protein structure by using reduced amino acid alphabets".NUCLEIC ACIDS RESEARCH 50.W1(2022):W633-W638. |
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| Zheng-2022-RaacFold_（3481KB） | 期刊论文 | 出版稿 | 开放获取 | CC BY-NC-SA | 浏览 请求全文 | |
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