Cazymes对比分析流程.docx

1、Cazymes对比分析流程Cazymes对比分析流程NCBI数据库地址以Fibrobacter succinogenes为例。1.进入NCBI数据库，输入Fibrobacter succinogenes，在Gene下查找，图1进入下面的界面， 图2以FSU_2293为例,基因注释为木聚糖酶，点击进去，图3发现FSU_2293，属于GH10，有CBM6，将此基因进行统计，见下表。GH10FSU_2293CBM6BTDxylanasexylanase 若是NCBI上没有显示相关的GH家族或CBM，则可以进行BLAST。点击图3中的“FASTA”，复制相关基因进行BLAST。例如CHU_0868，是

2、糖基转移酶相关的基因，但是没有显示具体的GT家族。图4进行BLAST，图5点击相关的结构域，进入另一个网页，图6可以看到，此基因属于GT1家族。或是进行Pfam结构域搜索：网址：，输入相关基因，点击，图7可以看到，此基因具有GT1结构域，属于GT1家族。分别统计glycoside hydrolase（GH）、glycosyl transferase(GT)、polysaccharide lyase(PL)、carbohydrate Esterase(CE)。对于glycoside hydrolase可以统计与纤维素降解和半纤维素降解相关的基因。格式见下表。注意：表中标红的列为必填项目，“Cha

3、racterized Activity”为图2中的“Descriprition”。CAZyFamilyMYP LocusCBM FamilyIn Silico PredictionCharacterized ActivityGH(74)GHMYP_0567hypothetical proteinGHMYP_0581hypothetical proteinGHMYP_0913hypothetical proteinGHMYP_1026hypothetical proteinGHMYP_1096hypothetical proteinGHMYP_3811endoglucanaseendogluca

4、naseGHMYP_4017xyloglucanasexyloglucanaseGHMYP_4345CBM9beta-xylosidase/endoglucanasebeta-xylosidase/endoglucanaseGHMYP_4348CBM4_9glycerol kinaseglycerol kinaseGH1MYP_2015beta-galactosidasebeta-galactosidaseGH2MYP_3616beta-mannosidasebeta-mannosidaseGH3MYP_0984b-glucosidaseb-glucosidaseGH3MYP_1602hypo

5、thetical proteinGH3MYP_1909b-glucosidaseb-glucosidaseGH3MYP_2588xylosidase/arabinosidasexylosidase/arabinosidaseGH3MYP_3067glycoside hydrolaseGH3MYP_4245xylosidase/arabinosidasexylosidase/arabinosidaseGH3MYP_4961b-N-acetylglucosaminidaseGH5MYP_0458endoglucanaseEndoglucanaseGH5MYP_2390endoglucanaseen

6、doglucanaseGH5MYP_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 enzy

7、meGH5MYP_3567endoglucanaseendoglucanaseGH8MYP_0051beta-glycosidase-like proteinbeta-glycosidase-like proteinGH8MYP_1583b-glycosidaseb-glycosidaseGH8MYP_1794chitinaseChitinaseGH8MYP_2076hypothetical proteinGH8MYP_2112bifunctional xylanase/esterasebifunctional xylanase/esteraseGH8MYP_2156beta-glycosid

8、ase-like proteinbeta-glycosidase-like proteinGH8MYP_2756chitosanase-glucanasechitosanase-glucanaseGH8MYP_3325beta-glycosidasebeta-glycosidase-like proteinGH8MYP_3614bifunctional xylanase/esterasebifunctional xylanase/esteraseGH8MYP_3786hypothetical proteinGH8MYP_4347CBM4_9glycoside hydrolaseGH8MYP_4

9、354glycoside hydrolaseGH9MYP_0135Endoglucanase-like proteinGH9MYP_0327endoglucanaseEndoglucanaseGH9MYP_1185endoglucanaseGH9MYP_1436hypothetical proteinGH9MYP_1796endoglucanaseendoglucanaseGH9MYP_2099hypothetical proteinGH9MYP_3429beta-glycosidasebeta-glycosidase-like proteinGH9MYP_4968endoglucanasee

10、ndoglucanaseGH10MYP_2074CBM4_9bifunctional acetylxylan esterase/xylanaseGH10MYP_2104CBM6endoglucanase-like proteinendoglucanase-like proteinGH10MYP_3331CBM6xylanaseXylanaseGH10MYP_4086bifunctional acetylxylan esterase/xylanaseGH11MYP_2111CBM9xylanaseXylanaseGH13MYP_2299alpha-amylase alpha-amylase GH

11、15MYP_0927hypothetical proteinGH15MYP_3689glucoamylaseglucoamylaseGH16MYP_3454CBM4glycoside hydrolase family proteinGH16MYP_4151glycoside hydrolase family 16GH16MYP_4349CBM4_9Beta-glucanaseBeta-glucanaseGH18MYP_3548glycoside hydrolaseGH26MYP_4610hypothetical proteinGH30MYP_2082CBM6carbohydrate-bindi

12、ng family 6 proteinglucuronoxylanaseGH31MYP_0331a-glucosidaseGH39MYP_0836CBM6hypothetical proteinGH43MYP_2103CBM6beta-xylosidase/alpha-L-arabinofuranosidasebeta-xylosidase/alpha-L-arabinofuranosidase-like proteinGH43MYP_2107CBM6hypothetical proteinGH43MYP_2166CBM6multifunctional acetylxylan esterase

13、/b-xylosidase/a-L-arabinofuranosidaseGH43MYP_3646ArabinoseGH53MYP_3037hypothetical proteinGH57MYP_0329alpha-amylasealpha-amylaseGH63MYP_0745hypothetical proteinGH63MYP_2463hypothetical proteinGH65MYP_2960trehalose 6-phosphate phosphorylaseGH97MYP_3104alpha-glucosidasealpha-glucosidaseGH108MYP_0649hy

14、pothetical 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_

15、4162carboxylesteraseCEMYP_4267polysaccharide deacetylaseCEMYP_4670esteraseGT(90)GT1MYP_02303-deoxy-D-manno-octulosonic acid transferaseGT1MYP_0330hypothetical proteinGT1MYP_0486hypothetical proteinGT1MYP_0985Dolichol-phosphate mannosyltransferaseGT1MYP_1016hypothetical proteinGT1MYP_1017hypothetical

16、 proteinGT1MYP_1020hypothetical proteinGT1MYP_1284glycosyl transferaseGT1MYP_1285hypothetical proteinGT1MYP_1289a-glycosyltransferaseGT1MYP_1290a-glycosyltransferaseGT1MYP_1293a-glycosyltransferaseGT1MYP_1644a-glycosyltransferaseGT1MYP_2180a-glycosyltransferaseGT1MYP_2422group 1 glycosyl transferase

17、GT1MYP_2494glycosyl transferasGT1MYP_3185hypothetical proteinGT1MYP_3186glycosyl transferaseGT1MYP_3279glycosyl transferaseGT1MYP_3393SAM-dependent methyltransferaseGT1MYP_3652hypothetical proteinGT1MYP_3933hypothetical proteinGT1MYP_4319hypothetical proteinGT1MYP_0560hypothetical proteinGT1MYP_2014

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

19、 transferaseGT2MYP_0507glycosyl transferase family 2GT2MYP_0557putative transmembrane glycosyltransferaseGT2MYP_0564glycosyl transferase family proteinGT2MYP_0573glycosyl transferase family 2GT2MYP_1011glycosyl transferaseGT2MYP_1012hypothetical proteinGT2MYP_1013family 2 glycosyl transferaseGT2MYP_

20、1014glycosyl transferase family 2GT2MYP_1047glycosyl transferaseGT2MYP_1048hypothetical proteinGT2MYP_1249hypothetical proteinGT2MYP_1276glycosyl transferase family 2GT2MYP_1281family 2 glycosyl transferaseGT2MYP_1291putative colanic acid biosynthesis acetyltransferaseGT2MYP_1316hypothetical protein

21、GT2MYP_1673glycosyl 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

22、_2490glycosyl transferase family 2GT2MYP_3094hypothetical proteinGT2MYP_3177hypothetical proteinGT2MYP_3228glycosyl transferase family 2GT2MYP_3390glycosyl transferase family 2GT2MYP_3391b-glycosyltransferaseGT2MYP_3497dolichyl-phosphate beta-D-mannosyltransferaseGT2MYP_3817dolichol-phosphate mannos

23、yltransferaseGT2MYP_3927glycosyl transferase family 2GT2MYP_3935hypothetical proteinGT2MYP_3936glycosyl transferase GT2MYP_3938hypothetical proteinGT2MYP_3941putative acetyl transferaseGT2MYP_4271glycosyl transferase family 2GT2MYP_4449b-glycosyltransferaseGT2MYP_4494family 2 glycosyl transferaseGT3

24、MYP_1785anthranilate phosphoribosyltransferaseGT3MYP_2499hypothetical proteinGT4MYP_0931glycosyltransferase/acetylmuramyl pentapeptide phosphotransferaseGT4MYP_4218phospho-N-acetylmuramoyl-pentapeptide-transferaseGT5MYP_2032glycogen synthaseGT9MYP_3183hypothetical proteinGT9MYP_3184glycosyl transfer

25、ase family 9GT9MYP_3190glycosyl transferase GT9MYP_1186glycosyl transferaseGT9MYP_1410heptosyltransferaseGT9MYP_2362hypothetical proteinGT9MYP_4154glycosyl transferase family 9GT20MYP_2116hypothetical proteinGT20MYP_3131hypothetical proteinGT20MYP_3690hypothetical proteinGT25MYP_0631glycosyl transfe

26、raseGT28MYP_4221UDP-diphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferaseCBM（8）CBM6MYP_1233CBM6carbohydrate binding moduleCBM6MYP_2105CBM6carbohydrate binding moduleCBM6MYP_2109CBM6carbohydrate binding moduleCBM6MYP_2162CBM6carbohydrate binding moduleCBM6MYP_2165CBM6carbohydrate binding moduleCBM4MYP_3691CBM4carbohydrate binding moduleCBM6MYP_4094CBM6carbohydrate binding moduleCBM6MYP_4095CBM6