[Sequence analysis for genes encoding nucleoprotein and envelope protein of a new human coronavirus NL63 identified from a pediatric patient in Beijing by bioinformatics].
The aim of this study was to characterize the N and E protein encoding genes of a new human coronavirus (HCoV-NL63) which was identified from one of the clinical specimens (BJ8081) collected from a 12 years-old patient with acute respiratory infection in Beijing. The complete N and E gene sequences of HCoV-NL63 were amplified from clinical sample by RT-PCR, then were cloned into the pCF-T and pUCm-T vectors respectively and sequenced. The complete sequences of N and E genes were submitted to GenBank by Sequin and compared with N and E genes of prototype HCoV-NL63 and the other coronaviruses published in GenBank. The secondary structure and the characteristics of sample BJ8081 N and E proteins were predicted by bioinformatics. It was indicated that the N and E genes amplified from sample BJ8081 were 1134 bp and 234 bp in length and the predicted proteins including 377 amino acids and 77 amino acids, respectively. The data suggested that the region of amino acids 78-85 within N protein probably was the conserved region for all coronaviruses identified so far including HCoV-NL63. The region of amino acids 15-37 for E protein was probably the transmembrane domain. In conclusion, the recombinant plasmids pCF-T-8081 N and pUCm-T-8081 E were successfully constructed and sequenced, and the data predicted by bioinformatics are helpful for the further analysis of HCoV-NL63.
Xing
Jiang-feng
JF
Laboratory of Virology, Capital Institute of Pediatrics, Beijing 100020, China.
Zhu
Ru-nan
RN
Qian
Yuan
Y
Zhao
Lin-qing
LQ
Deng
Jie
J
Wang
Fang
F
Sun
Yu
Y
D000595:Amino Acid Sequence; D002648:Child; D002681:China; D019295:Computational Biology / Q000379:methods*; D017934:Coronavirus / Q000145:classification / Q000235:genetics* / Q000378:metabolism; D018352:Coronavirus Infections / Q000821:virology; D000086462:Coronavirus Nucleocapsid Proteins; D006801:Humans; D008969:Molecular Sequence Data; D019590:Nucleocapsid Proteins / Q000737:chemistry / Q000235:genetics* / Q000378:metabolism; D010802:Phylogeny; D017433:Protein Structure, Secondary; D017422:Sequence Analysis, DNA; D017386:Sequence Homology, Amino Acid; D014759:Viral Envelope Proteins / Q000737:chemistry / Q000235:genetics* / Q000378:metabolism
D000086462:Coronavirus Nucleocapsid Proteins; D019590:Nucleocapsid Proteins; D014759:Viral Envelope Proteins