Cazymes對(duì)比分析流程

1、Cazymes對(duì)比分析流程N(yùn)CBI數(shù)據(jù)庫地址以Fibrobacter succinogenes為例。1.進(jìn)入NCBI數(shù)據(jù)庫，輸入Fibrobacter succinogenes，在Gene下查找，圖1進(jìn)入下面的界面， 圖2以FSU_2293為例,基因注釋為木聚糖酶，點(diǎn)擊進(jìn)去，圖3發(fā)現(xiàn)FSU_2293，屬于GH10，有CBM6，將此基因進(jìn)行統(tǒng)計(jì)，見下表。GH10FSU_2293CBM6BTDxylanasexylanase若是NCBI上沒有顯示相關(guān)的GH家族或CBM，則可以進(jìn)行BLAST。點(diǎn)擊圖3中的“FASTA”，復(fù)制相關(guān)基因進(jìn)行BLAST。例如CHU_0868，是糖基轉(zhuǎn)移酶相關(guān)的基因，但是沒

2、有顯示具體的GT家族。圖4進(jìn)行BLAST，圖5點(diǎn)擊相關(guān)的結(jié)構(gòu)域，進(jìn)入另一個(gè)網(wǎng)頁，圖6可以看到，此基因?qū)儆贕T1家族?；蚴沁M(jìn)行Pfam結(jié)構(gòu)域搜索：網(wǎng)址：，輸入相關(guān)基因，點(diǎn)擊，圖7可以看到，此基因具有GT1結(jié)構(gòu)域，屬于GT1家族。分別統(tǒng)計(jì)glycoside hydrolase（GH）、glycosyl transferase(GT)、 polysaccharide lyase(PL)、carbohydrate Esterase(CE)。對(duì)于glycoside hydrolase可以統(tǒng)計(jì)與纖維素降解和半纖維素降解相關(guān)的基因。格式見下表。注意：表中標(biāo)紅的列為必填項(xiàng)目，“Characteriz

3、ed Activity”為圖2中的“Descriprition”。CAZyFamilyMYP LocusCBM FamilyIn Silico PredictionCharacterized ActivityGH(74)GHMYP_0567hypothetical proteinGHMYP_0581hypothetical proteinGHMYP_0913hypothetical proteinGHMYP_1026hypothetical proteinGHMYP_1096hypothetical proteinGHMYP_3811endoglucanaseendoglucanaseGHMY

4、P_4017xyloglucanasexyloglucanaseGHMYP_4345CBM9beta-xylosidase/endoglucanasebeta-xylosidase/endoglucanaseGHMYP_4348CBM4_9glycerol kinaseglycerol kinaseGH1MYP_2015beta-galactosidasebeta-galactosidaseGH2MYP_3616beta-mannosidasebeta-mannosidaseGH3MYP_0984b-glucosidaseb-glucosidaseGH3MYP_1602hypothetical

5、 proteinGH3MYP_1909b-glucosidaseb-glucosidaseGH3MYP_2588xylosidase/arabinosidasexylosidase/arabinosidaseGH3MYP_3067glycoside hydrolaseGH3MYP_4245xylosidase/arabinosidasexylosidase/arabinosidaseGH3MYP_4961b-N-acetylglucosaminidaseGH5MYP_0458endoglucanaseEndoglucanaseGH5MYP_2390endoglucanaseendoglucan

6、aseGH5MYP_1753beta-glycosidasebeta-glycosidaseGH5MYP_2157endo-1,4-beta-mannosidaseendo-1,4-beta-mannosidaseGH5MYP_2462beta-glycosidasebeta-glycosidaseGH5MYP_2666endoglucanaseendoglucanaseGH5MYP_3206endo-1,4-beta-mannosidaseendo-1,4-beta-mannosidaseGH5MYP_3455putative carbohydrate-active enzymeGH5MYP

7、_3567endoglucanaseendoglucanaseGH8MYP_0051beta-glycosidase-like proteinbeta-glycosidase-like proteinGH8MYP_1583b-glycosidaseb-glycosidaseGH8MYP_1794chitinaseChitinaseGH8MYP_2076hypothetical proteinGH8MYP_2112bifunctional xylanase/esterasebifunctional xylanase/esteraseGH8MYP_2156beta-glycosidase-like

8、 proteinbeta-glycosidase-like proteinGH8MYP_2756chitosanase-glucanasechitosanase-glucanaseGH8MYP_3325beta-glycosidasebeta-glycosidase-like proteinGH8MYP_3614bifunctional xylanase/esterasebifunctional xylanase/esteraseGH8MYP_3786hypothetical proteinGH8MYP_4347CBM4_9glycoside hydrolaseGH8MYP_4354glyco

9、side hydrolaseGH9MYP_0135Endoglucanase-like proteinGH9MYP_0327endoglucanaseEndoglucanaseGH9MYP_1185endoglucanaseGH9MYP_1436hypothetical proteinGH9MYP_1796endoglucanaseendoglucanaseGH9MYP_2099hypothetical proteinGH9MYP_3429beta-glycosidasebeta-glycosidase-like proteinGH9MYP_4968endoglucanaseendogluca

10、naseGH10MYP_2074CBM4_9bifunctional acetylxylan esterase/xylanaseGH10MYP_2104CBM6endoglucanase-like proteinendoglucanase-like proteinGH10MYP_3331CBM6xylanaseXylanaseGH10MYP_4086bifunctional acetylxylan esterase/xylanaseGH11MYP_2111CBM9xylanaseXylanaseGH13MYP_2299alpha-amylase alpha-amylase GH15MYP_09

11、27hypothetical proteinGH15MYP_3689glucoamylaseglucoamylaseGH16MYP_3454CBM4glycoside hydrolase family proteinGH16MYP_4151glycoside hydrolase family 16GH16MYP_4349CBM4_9Beta-glucanaseBeta-glucanaseGH18MYP_3548glycoside hydrolaseGH26MYP_4610hypothetical proteinGH30MYP_2082CBM6carbohydrate-binding famil

12、y 6 proteinglucuronoxylanaseGH31MYP_0331a-glucosidaseGH39MYP_0836CBM6hypothetical proteinGH43MYP_2103CBM6beta-xylosidase/alpha-L-arabinofuranosidasebeta-xylosidase/alpha-L-arabinofuranosidase-like proteinGH43MYP_2107CBM6hypothetical proteinGH43MYP_2166CBM6multifunctional acetylxylan esterase/b-xylos

13、idase/a-L-arabinofuranosidaseGH43MYP_3646ArabinoseGH53MYP_3037hypothetical proteinGH57MYP_0329alpha-amylasealpha-amylaseGH63MYP_0745hypothetical proteinGH63MYP_2463hypothetical proteinGH65MYP_2960trehalose 6-phosphate phosphorylaseGH97MYP_3104alpha-glucosidasealpha-glucosidaseGH108MYP_0649hypothetic

14、al proteinPL(2)PL3MYP_4611pectate lyasepectate lyasePL3MYP_4344pectate lyaseCE(10)CEMYP_1590esterase/lipaseCEMYP_2110esteraseCEMYP_2444polysaccharide deacetylaseCEMYP_3048arylesteraseCEMYP_3055acetylxylan esteraseCEMYP_3791UDP-3-O-N-acetylglucosamine deacetylaseCEMYP_3868PectinesteraseCEMYP_4162carb

15、oxylesteraseCEMYP_4267polysaccharide deacetylaseCEMYP_4670esteraseGT(90)GT1MYP_02303-deoxy-D-manno-octulosonic acid transferaseGT1MYP_0330hypothetical proteinGT1MYP_0486hypothetical proteinGT1MYP_0985Dolichol-phosphate mannosyltransferaseGT1MYP_1016hypothetical proteinGT1MYP_1017hypothetical protein

16、GT1MYP_1020hypothetical proteinGT1MYP_1284glycosyl transferaseGT1MYP_1285hypothetical proteinGT1MYP_1289a-glycosyltransferaseGT1MYP_1290a-glycosyltransferaseGT1MYP_1293a-glycosyltransferaseGT1MYP_1644a-glycosyltransferaseGT1MYP_2180a-glycosyltransferaseGT1MYP_2422group 1 glycosyl transferaseGT1MYP_2

17、494glycosyl transferasGT1MYP_3185hypothetical proteinGT1MYP_3186glycosyl transferaseGT1MYP_3279glycosyl transferaseGT1MYP_3393SAM-dependent methyltransferaseGT1MYP_3652hypothetical proteinGT1MYP_3933hypothetical proteinGT1MYP_4319hypothetical proteinGT1MYP_0560hypothetical proteinGT1MYP_2014hypothet

18、ical proteinGT1MYP_2360a-glycosyltransferaseGT1MYP_2361hypothetical proteinGT1MYP_2530hypothetical proteinGT1MYP_3742glycosyltransferasGT1MYP_4038hypothetical proteinGT1MYP_4234glycosyl transferase GT1/GT2MYP_1046hypothetical proteinGT2MYP_0044hypothetical proteinGT2MYP_0228family 2 glycosyl transfe

19、raseGT2MYP_0507glycosyl transferase family 2GT2MYP_0557putative transmembrane glycosyltransferaseGT2MYP_0564glycosyl transferase family proteinGT2MYP_0573glycosyl transferase family 2GT2MYP_1011glycosyl transferaseGT2MYP_1012hypothetical proteinGT2MYP_1013family 2 glycosyl transferaseGT2MYP_1014glyc

20、osyl transferase family 2GT2MYP_1047glycosyl transferaseGT2MYP_1048hypothetical proteinGT2MYP_1249hypothetical proteinGT2MYP_1276glycosyl transferase family 2GT2MYP_1281family 2 glycosyl transferaseGT2MYP_1291putative colanic acid biosynthesis acetyltransferaseGT2MYP_1316hypothetical proteinGT2MYP_1

21、673glycosyl transferaseGT2MYP_1684a-glycosyltransferaseGT2MYP_2040glycosyl transferase family 2GT2MYP_2178family 2 glycosyl transferaseGT2MYP_2187hypothetical proteinGT2MYP_2239family 2 glycosyl transferaseGT2MYP_2483glycosyl transferase family 2GT2MYP_2489glycosyl transferase family 2GT2MYP_2490gly

22、cosyl transferase family 2GT2MYP_3094hypothetical proteinGT2MYP_3177hypothetical proteinGT2MYP_3228glycosyl transferase family 2GT2MYP_3390glycosyl transferase family 2GT2MYP_3391b-glycosyltransferaseGT2MYP_3497dolichyl-phosphate beta-D-mannosyltransferaseGT2MYP_3817dolichol-phosphate mannosyltransf

23、eraseGT2MYP_3927glycosyl transferase family 2GT2MYP_3935hypothetical proteinGT2MYP_3936glycosyl transferase GT2MYP_3938hypothetical proteinGT2MYP_3941putative acetyl transferaseGT2MYP_4271glycosyl transferase family 2GT2MYP_4449b-glycosyltransferaseGT2MYP_4494family 2 glycosyl transferaseGT3MYP_1785anthranilate phosphoribosyltransferaseGT3MYP_2499hypothetical proteinGT4MYP_0931glycosyltransferase/acetylmuramyl pentapeptide phosphotransferaseGT4MYP_4218phospho-N-acetylmuramoyl-pentapeptide-transferaseGT5MYP_2032glycogen synthaseGT9M