Result of leader protein

The Putative Secondary Structure of the putative coronavirus nsp1

1.氨基酸组成:(%)

%A: 7.4	%C: 3.0	%D: 5.1	%E: 6.0	%F: 4.8	%M: 2.3	%N: 4.8	%P: 3.9	%Q: 2.9	%R: 2.9
%G: 5.5	%H: 2.0	%I: 4.9	%K: 6.1	%L: 9.6	%S: 7.3	%T: 7.7	%V: 8.2	%W: 0.9	%Y: 4.7

2.Helix,Sheet等的预测结果:

方法:向The PredictProtein server提交多肽序列.预测实现方法参见Rost B(1996)

结果:结果包括两个部分,Fig1为图象化以后的结果图,直接的预测结果请参看这里

image

Fig1.Helix,Strand预测结果

3.Motif预测:

方法:在prosit中通过序列比对,找到蛋白中可能含有的序列的motif.

结果:下表中列出了改序列中可能含有的motif.其中,数字表示motif的第一个氨基酸在整个序列中的位置,后面的字母表示氨基酸序列.

N-glycosylation site	Casein kinase II phosphorylation site	Protein kinase C phosphorylation site
98 NFSS 810 NHTK 878 NKTV 1081 NASF 1261 NTSI 1431 NSSN 1689 NNTK 1867 NVSL	7 TFGE 12 TVWE 47 SGTE 135 TEDD 171 SEIE 180 TPEE 372 SKTE 399 TTLE 435 SFLE 450 TSGD 496 TLEE 584 TSKE 598 SLNE 636 SSPD 654 TSEE 668 SYRD 699 SPVE 720 SLRE 731 TTVD 756 TYLD 796 TLDE 880 TVGE 922 TGVE 999 TAKE 1047 TYTE 1206 TSEE 1436 TTMD 1452 SGLD 1578 TRVE 1706 SKCD 1803 TDVD 1820 SDLE 1843 TPRD 1879 SLSE 1956 SIHD 1981 STDD 2103 SYSE 2126 TYLE 2136 TTFD 2332 STFE 2384 SYRE 2403 SGAD	100 SSR 152 TVR 328 TVR 408 TNK 461 SKK 543 TRK 584 TSK 626 SLK 651 SSK 668 SYR 720 SLR 726 TIK 785 TLR 812 TKK 825 SIK 877 SNK 902 SAK 999 TAK 1035 TIK 1040 SYK 1137 SFK 1157 TTK 1161 TFK 1174 STK 1265 TIK 1361 SVK 1379 SPK 1472 SYK 1746 SVK 1843 TPR 1905 TTR 1914 TTK 1918 SLK 1998 SQR 2003 SYK 2131 SVR 2160 SGR 2308 SLK 2384 SYR
N-myristoylation site	Prokaryotic membrane lipoprotein lipid attachment site	Tyrosine kinase phosphorylation site
5 GVTFGE 48 GTEVTE 228 GGGVAG 312 GIFGAK 489 GQGCAG 760 GADVTK 821 GGLTSI 915 GQKTTT 978 GTFLCA 988 GNYQCG 1009 GAHLTK 1045 GVTYTE 1242 GVKVTQ 1400 GSLICV 1410 GVLLSN 1443 GSFPCS 1562 GCTSST 1588 GMKRSF 1787 GVLSTF 1799 GVVDTD 2002 GSYKND 2027 GLPGTV 2154 GICLST 2175 GVFCGV 2209 GGIIAI 2328 GVTFST 2378 GALDTT	253 LNGPLTVGGSC	687 KRGDKIVY 827 KWADNNCY
Cell attachment sequence	Zinc carboxypeptidases, zinc-binding region 2 signature	Mitochondrial energy transfer proteins signature
688 RGD	1284 HGIAAINSVPW	1764 PMEKLKALVA

4.穿膜片断预测结果

这是用The PredictProtein Server预测二阶结构的结果之一,下表列出了可能的穿膜片断以及整个肽链在膜内和膜外的分布情况.由于以下是序列扫描以后的结果,所有有些非膜蛋白也有可能被预测为有穿膜序列.

Positions	Segments	Explain
1- 1281	o1	outside region 1
1282- 1299	M1	membrane helix 1
1300- 1387	i1	inside region 1
1388- 1411	M2	membrane helix 2
1412- 1483	o2	outside region 2
1484- 1508	M3	membrane helix 3
1509- 1516	i2	inside region 2
1517- 1541	M4	membrane helix 4
1542- 1931	o3	outside region 3
1932- 1949	M5	membrane helix 5
1950- 2203	i3	inside region 3
2204- 2222	M6	membrane helix 6
2223- 2240	o4	outside region 4
2241- 2259	M7	membrane helix 7
2260- 2263	i4	inside region 4
2264- 2281	M8	membrane helix 8
2282- 2289	o5	outside region 5
2290- 2307	M9	membrane helix 9
2308- 2422	i5	inside region 5

具体的预测结果请参看这里

参考文献:

1.PHD: predicting one-dimensional protein structure by profile-based neural networks.

2.Prediction of protein secondary structure at better than 70% accuracy

3.Topology prediction for helical transmembrane proteins at 86% accuracy

4.The PROSITE database, its status in 1999.