人DDB2基因及蛋白质的生物信息学分析

楚雄师范学院学报 ›› 2020, Vol. 35 ›› Issue (3): 74-80.

人DDB2基因及蛋白质的生物信息学分析

王淮, 杨健康^*

大理大学基础医学院,云南大理 671000

收稿日期:2019-11-10 出版日期:2020-05-20 发布日期:2020-12-28
通讯作者: *杨健康(1984-),男,博士,大理大学基础医学院助理研究员,主要从事分子生物学研究。E-mail:jkyang1984@126.com.
作者简介:王淮(1995-),女,硕士研究生,主要从事人体生理与病理生理学研究。
基金资助:
国家自然科学基金资助项目(NO:81760565)

Bioinformatics Analysis of Human DDB2 Gene and Protein

WANG Huai, YANG Jiankang

School of Basic Medical Sciences,Dali University,Dali,Yunnan Province 671000

Received:2019-11-10 Online:2020-05-20 Published:2020-12-28

摘要/Abstract

摘要： 分析DNA损伤特异结合蛋白2(DDB2)基因的启动子、CpG岛、转录因子结合位点、基因表达情况;分析DDB2蛋白的理化性质、同源性、亚细胞定位、信号肽和跨膜区域、蛋白质结构及相互作用网络。DDB2基因至少含有2个启动子。启动子区存在2个CpG岛,长度分别109 bp和267 bp,而且至少包含NF-1和Sp1 两个转录因子结合位点。DDB2基因在人体正常组织中均有表达,在白血病早幼粒细胞HL-60、721B淋巴母细胞中表达最高。DDB2蛋白是由427个氨基酸组成的无信号肽、无跨膜区域的亲水蛋白。主要定位于细胞核,二级结构以随机卷曲为主。还发现蛋白DDB1、CUL4A、CUL4B、XPA、COPS2、COPS4、COPS8、COPS5、COPS7B、TP53可能与DDB2存在相互作用。生物信息学对于基因及蛋白质研究具有重要作用。本文通过生物信息学的方法对DDB2基因及蛋白质进行分析,为DDB2的实验研究提供理论基础和新的线索。

关键词: DDB2, 启动子区, 蛋白, 生物信息学

Abstract: We analyzed gene promoter,CpG islands,transcription factor binding site,gene expression,protein physicochemical properties,homology,subcellular localization,signal peptide and transmembrane region,protein structure and interaction of proteins of DNA damage specific binding protein 2 (DDB2).DDB2 gene was expressed in normal tissues of human body,among which leukemia promyelocytic cells HL-60 and lymphoblasts 721B had the highest expression.The DDB2 gene contained at least two promoter sequences and two CpG islands whose lengths were 109 bp and 267 bp.Furthermore,the promoter region contained at least two transcription factor binding sites of NF-1 and Sp1.The DDB2 protein was a hydrophilic protein composed of 427 amino acids.It was mainly located in the nucleus without signal peptide and transmembrane region.The secondary structure was mainly composed of random curl.It was also found that protein DDB1,CUL4A,CUL4B,XPA,COPS2,COPS4,COPS8,COPS5,COPS7B and TP53 may interact with DDB2.Bioinformatics has unique roles in genetic and protein research.We analyzed DDB2 gene and protein with bioinformatics method,which will provide theoretical basis and new clues for experimental research of DDB2.

Key words: DDB2, promoter region, protein, bioinformatics

中图分类号:

王淮, 杨健康. 人DDB2基因及蛋白质的生物信息学分析[J]. 楚雄师范学院学报, 2020, 35(3): 74-80.

WANG Huai, YANG Jiankang. Bioinformatics Analysis of Human DDB2 Gene and Protein[J]. Journal of Chuxiong Normal University, 2020, 35(3): 74-80.

参考文献

[1] 熊梦媛.探讨DDB2基因对痤疮增生性瘢痕形成及TGF-β/Smads信号通路的影响[D].泸州:西南医科大学,2019.
Xiong M Y.The effect of DDB2 gene on acne hypertrophic scar and TGF-β/Smads signal pathway[D].Luzhou:Southwest Medical University,2019.
[2] Minig V,Kattan Z,Van Beeumen J,et al.Identification of DDB2 protein as a transcriptional regulator of constitutive SOD2 gene expression in human breast cancer cells[J].Journal of Biological Chemistry,2009,284(21):14165–14176.
[3] He L,Wu W J,Yang J K,et al.Two new susceptibility loci 1q24.2 and 11p11.2 confer risk to severe acne[J].Nature Communications,2014,5(1):361–372.
[4] Cui T,Srivastsva A K,Han C,et al.DDB2 represses ovarian cancer cell dedifferentiation by suppressing ALDH1A1[J].Cell Death &Disease,2018,9(5):7–30.
[5] 杨树德,曹奇志,冯小英,等.人LAIR-1/CD305基因启动子的生物信息学分析[J].细胞与分子免疫学杂志,2010,26(8):826–828.
Yang S D,Cao Q Z,Feng X Y,et al.Bioinformatics analysis of human LAIR-1/CD305 gene promoter[J].Chinese Journal of Cellular and Molecular Immunology,2010,26(8):826–828.
[6] Gilson P,Drouot G,Witz A,et al.Emerging roles of DDB2 in cancer[J].International Journal of Molecular Sciences,2019,20(20):5168.
[7] 吕美霞,杨晓波,白云,等.DNA损伤结合蛋白(DDB2)基因单核苷酸多态性与肺癌易感性研究[J].中华疾病控制杂志,2007,11(5):444–447.
Lv M X,Yang X B,Bai Y,et al.Association of genetic polymorphisms in the DNA repair gene DDB2 with risk of lung cancer[J].Chinese Journal of Disease Control &Prevention,2007,11(5):444–447.
[8] 王秋岩,何淑雅,马云,等.启动子分析方法的研究进展[J].现代生物医学进展,2015,15(14):2794–2800.
Wang Q Y,He S Y,Ma Y,et al.Advances in analytical methods of promoter[J].Progress in Modern Biomedicine,2015,15(14):2794–2800.
[9] 孙美涛,王昀,李月,等.hMTERF3基因启动子区的生物信息学分析[J].大理大学学报,2017,2(2):40–45.
Sun M T,Wang Y,Li Y,et al.Bioinformatics analysis of hMTERF3 gene promoter region[J].Journal of Dali University,2017,2(2):40–45.
[10] 朴智,农晓琳.CpG岛预测方法的选择及评价[J].北方药学,2014,11(3):129.
Pu Z,Nong X L.Selection and evaluation of CpG island prediction methods[J].Journal of North Pharmacy,2014,11(3):129.
[11] 管晓翔,陈巍魏,陈龙邦,等.p27^Kip1基因启动子区的生物信息学分析[J].医学研究生学报,2010,23(10):1029–1032.
Guan X X,Chen W W,Chen L B,et al.Bioinformatic analysis of the p27^Kip1 promoter region[J].Journal of Medical Postgraduates,2010,23(10):1029–1032.