[Polymorphism and structural analysis of suppressor of cytokine signaling-1 of rat].
OBJECTIVE
To identify the suppressor of cytokine signaling-1 (SOCS-1) of rat from the amplified gene with the help of bioinformatics to predict the deduced protein's structure and function in order to lay the foundation for further theoretical study.


METHODS
The full-length rat SOCS-1 gene was amplified and identified from the GeneBank Nucleotide database, and the corresponding structure and function of its deduced protein was predicted by the bioinformatics analyzing tools online and the complicated bioinformatics software package Vector NTI suite 8.0, meanwhile the molecular cladogram was reconstructed.


RESULTS
Two sequences were obtained by polymerase chain reaction (PCR) amplification of different SOCS-1 gene. The gene was comprised of 639 base pairs in the length, deduced 212 amino acids (aa), contained a SOCS box (aa172-aa208), a SH2 domain (aa80-aa155) and a nuclear localization sequence (aa160-aa174). The primary structure contained two linear B cell epitopes, all of them were on the surface of the protein and far away from the spatial structure.


CONCLUSIONS
SOCS-1 gene has a polymorphism, its conservative SH2 region and SOCS box are related to its inhibitory effect on the signal transduction pathway. The nucleic localization sequence may affect other nuclear transduction factors. The B cell linear epitopes may be a candidate of immunodiagnosis with promising prospects.
Xu
Jia
J
Department of General Internal Medicine, First Affiliated Hospital of Sun Yat-sen University, Guangzhou 510080, Guangdong, China.
Ma
Zhong-fu
ZF
Tang
Hao
H
Liang
Yan-bing
YB
Chen
Zhi-bin
ZB
Li
Zhen-yu
ZY
Wu
Jing-guo
JG
Liang
Hua-ping
HP
Hu
Xu-chu
XC
D000595:Amino Acid Sequence; D000818:Animals; D001483:Base Sequence; D019295:Computational Biology; D008297:Male; D008969:Molecular Sequence Data; D011110:Polymorphism, Genetic; D051381:Rats; D017207:Rats, Sprague-Dawley; D017422:Sequence Analysis, DNA; D000071222:Suppressor of Cytokine Signaling 1 Protein; D050826:Suppressor of Cytokine Signaling Proteins / Q000235:genetics*
C491589:Socs1 protein, rat; D000071222:Suppressor of Cytokine Signaling 1 Protein; D050826:Suppressor of Cytokine Signaling Proteins