Fatchiyah Fatchiyah, Christian Nur, Soeatmadji Djokowahono
Department of Biology, Faculty of Mathematics and Natural Sciences, Brawijaya University, Jl Veteran, Malang, East Java 65145,Indonesia.
Bioinformation. 2013 Oct 16;9(17):853-7. doi: 10.6026/97320630009853. eCollection 2013.
The purpose of this study is to examine the effect of mutation on tyrosine kinase hINSR gene of DM Type 2 patients reduce the IRS- 1 activation by in silico analysis. Blood DNA of DM Type 2 patients from Saeful Anwar Hospital Malang were amplified and sequenced by specific primers of tyrosine kinase domain of hINSR gene. These gene sequences were converted to protein sequence by BLAST and the IRS-1 protein sequence is retrieved from NCBI database. Both of the protein sequence was aligned by using Bio edit version 5.0.6. The model of three dimension protein was predicted by SWISS MODEL webserver, and visualized the structure alteration by using Pymol 0.99rc6 and Hex 5.0, and then superimpose of the hINSR and IRS-1 interaction were examined by docking using Hex 5.0. The results showed that one substitution and one deletion of 8-3F patient exon-22 hINSR gene tyrosine kinase domain cause loss of four helixes and three coils structures on tyrosine kinase hINSR protein. Six-deletions and six-substitutions on same gene domain of DMK9 patient changed the two helixes became coil structure. The binding energy of hINSR tyrosine kinase with IRS-1 of normal is E= -494.67 kJ/mol, DMK9 patient is E= -458.4 kJ/mol, and 8-3F patient is E=-544.20 kJ/mol. The DMK9 patient prognosis has better physiological condition than 8-3F patient. Interaction between 8-3F of hINSR tyrosine kinase domain mutation and PTB domain IRS-1 is more spontaneous than DMK9, but both of them were reduced on IRS-1 activation respectively.
本研究的目的是通过计算机分析,研究突变对2型糖尿病患者酪氨酸激酶hINSR基因的影响,以及其如何降低IRS-1的激活。从玛琅赛富安瓦尔医院采集2型糖尿病患者的血液DNA,用hINSR基因酪氨酸激酶结构域的特异性引物进行扩增和测序。这些基因序列通过BLAST转换为蛋白质序列,并从NCBI数据库中检索IRS-1蛋白质序列。使用Bio edit 5.0.6版本对这两种蛋白质序列进行比对。通过SWISS MODEL网络服务器预测三维蛋白质模型,并使用Pymol 0.99rc6和Hex 5.0可视化结构变化,然后使用Hex 5.0通过对接检查hINSR和IRS-1相互作用的叠加情况。结果显示,8-3F患者外显子22的hINSR基因酪氨酸激酶结构域发生一处替换和一处缺失,导致酪氨酸激酶hINSR蛋白上四个螺旋和三个卷曲结构缺失。DMK9患者同一基因结构域的六处缺失和六处替换使两个螺旋变成了卷曲结构。正常情况下hINSR酪氨酸激酶与IRS-1的结合能为E = -494.67 kJ/mol,DMK9患者为E = -458.4 kJ/mol,8-3F患者为E = -544.20 kJ/mol。DMK9患者的预后生理状况比8-3F患者更好。hINSR酪氨酸激酶结构域突变的8-3F与IRS-1的PTB结构域之间的相互作用比DMK9更自发,但两者均分别降低了IRS-1的激活。