Cazymes对比分析流程.docx
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Cazymes对比分析流程
Cazymes 对比分析流程
NCBI 数据库地址 http:
//www.ncbi.nlm.nih.gov/
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：
http:
//pfam.xfam.org/search，
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。
CAZy
Family
MYP Locus
CBM
Family
In Silico
Prediction
Characterized Activity
GH（74）
GH
MYP_0567
hypothetical protein
GH
MYP_0581
hypothetical protein
GH
MYP_0913
hypothetical protein
GH
MYP_1026
hypothetical protein
GH
MYP_1096
hypothetical protein
GH
MYP_3811
endoglucanase
endoglucanase
GH
MYP_4017
xyloglucanase
xyloglucanase
GH
MYP_4345
CBM9
beta-
xylosidase/endo
glucanase
beta-xylosidase/endoglucanase
GH
MYP_4348
CBM4_9
glycerol kinase
glycerol kinase
GH1
MYP_2015
beta-
galactosidase
beta-galactosidase
GH2
MYP_3616
beta-
mannosidase
beta-mannosidase
GH3
MYP_0984
b-glucosidase
b-glucosidase
GH3
MYP_1602
hypothetical protein
GH3
MYP_1909
b-glucosidase
b-glucosidase
GH3
MYP_2588
xylosidase/arabi
nosidase
xylosidase/arabinosidase
“Descriprition”。
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，“CharacterizedActivity”为图 2 中的
GH3
MYP_3067
glycoside hydrolase
GH3
MYP_4245
xylosidase/arabi
nosidase
xylosidase/arabinosidase
GH3
MYP_4961
b-N-acetylglucosaminidase
GH5
MYP_0458
endoglucanase
Endoglucanase
GH5
MYP_2390
endoglucanase
endoglucanase
GH5
MYP_1753
beta-glycosidase
beta-glycosidase
GH5
MYP_2157
endo-1,4-beta-
mannosidase
endo-1,4-beta-mannosidase
GH5
MYP_2462
beta-glycosidase
beta-glycosidase
GH5
MYP_2666
endoglucanase
endoglucanase
GH5
MYP_3206
endo-1,4-beta-
mannosidase
endo-1,4-beta-mannosidase
GH5
MYP_3455
putative carbohydrate-active
enzyme
GH5
MYP_3567
endoglucanase
endoglucanase
GH8
MYP_0051
beta-glycosidase-
like protein
beta-glycosidase-like protein
GH8
MYP_1583
b-glycosidase
b-glycosidase
GH8
MYP_1794
chitinase
Chitinase
GH8
MYP_2076
hypothetical protein
GH8
MYP_2112
bifunctional
xylanase/esteras
e
bifunctional xylanase/esterase
GH8
MYP_2156
beta-glycosidase-
like protein
beta-glycosidase-like protein
GH8
MYP_2756
chitosanase-
glucanase
chitosanase-glucanase
GH8
MYP_3325
beta-glycosidase
beta-glycosidase-like protein
GH8
MYP_3614
bifunctional
xylanase/esteras
e
bifunctional xylanase/esterase
GH8
MYP_3786
hypothetical protein
GH8
MYP_4347
CBM4_9
glycoside hydrolase
GH8
MYP_4354
glycoside hydrolase
GH9
MYP_0135
Endoglucanase-like protein
GH9
MYP_0327
endoglucanase
Endoglucanase
GH9
MYP_1185
endoglucanase
GH9
MYP_1436
hypothetical protein
GH9
MYP_1796
endoglucanase
endoglucanase
GH9
MYP_2099
hypothetical protein
GH9
MYP_3429
beta-glycosidase
beta-glycosidase-like protein
GH9
MYP_4968
endoglucanase
endoglucanase
GH10
MYP_2074
CBM4_9
bifunctional acetylxylan
esterase/xylanase
GH10
MYP_2104
CBM6
endoglucanase-
like protein
endoglucanase-like protein
GH10
MYP_3331
CBM6
xylanase
Xylanase
GH10
MYP_4086
bifunctional acetylxylan
esterase/xylanase
GH11
MYP_2111
CBM9
xylanase
Xylanase
GH13
MYP_2299
alpha-amylase
alpha-amylase
GH15
MYP_0927
hypothetical protein
GH15
MYP_3689
glucoamylase
glucoamylase
GH16
MYP_3454
CBM4
glycoside hydrolase family
protein
GH16
MYP_4151
glycoside hydrolase family 16
GH16
MYP_4349
CBM4_9
Beta-glucanase
Beta-glucanase
GH18
MYP_3548
glycoside hydrolase
GH26
MYP_4610
hypothetical protein
GH30
MYP_2082
CBM6
carbohydrate-
binding family 6
protein
glucuronoxylanase
GH31
MYP_0331
a-glucosidase
GH39
MYP_0836
CBM6
hypothetical protein
GH43
MYP_2103
CBM6
beta-xylosidase/
alpha-L-
arabinofuranosid
ase
beta-xylosidase/
alpha-L-arabinofuranosidase-like
protein
GH43
MYP_2107
CBM6
hypothetical protein
GH43
MYP_2166
CBM6
multifunctional acetylxylan
esterase/b-xylosidase/a-L-
arabinofuranosidase
GH43
MYP_3646
Arabinose
GH53
MYP_3037
hypothetical protein
GH57
MYP_0329
alpha-amylase
alpha-amylase
GH63
MYP_0745
hypothetical protein
GH63
MYP_2463
hypothetical protein
GH65
MYP_2960
trehalose 6-phosphate
phosphorylase
GH97
MYP_3104
alpha-
glucosidase
alpha-glucosidase
GH108
MYP_0649
hypothetical protein
PL
（2）
PL3
MYP_4611
pectate lyase
pectate lyase
PL3
MYP_4344
pectate lyase
CE（10）
CE
MYP_1590
esterase/lipase
CE
MYP_2110
esterase
CE
MYP_2444
polysaccharide deacetylase
CE
MYP_3048
arylesterase
CE
MYP_3055
acetylxylan esterase
CE
MYP_3791
UDP-3-O-N-acetylglucosamine
deacetylase
CE
MYP_3868
Pectinesterase
CE
MYP_4162
carboxylesterase
CE
MYP_4267
polysaccharide deacetylase
CE
MYP_4670
esterase
GT（90）
GT1
MYP_0230
3-deoxy-D-manno-octulosonic
acid transferase
GT1
MYP_0330
hypothetical protein
GT1
MYP_0486
hypothetical protein
GT1
MYP_0985
Dolichol-phosphate
mannosyltransferase
GT1
MYP_1016
hypothetical protein
GT1
MYP_1017
hypothetical protein
GT1
MYP_1020
hypothetical protein
GT1
MYP_1284
glycosyl transferase
GT1
MYP_1285
hypothetical protein
GT1
MYP_1289
a-glycosyltransferase
GT1
MYP_1290
a-glycosyltransferase
GT1
MYP_1293
a-glycosyltransferase
GT1
MYP_1644
a-glycosyltransferase
GT1
MYP_2180
a-glycosyltransferase
GT1
MYP_2422
group 1 glycosyl transferase
GT1
MYP_2494
glycosyl transferas
GT1
MYP_3185
hypothetical protein
GT1
MYP_3186
glycosyl transferase
GT1
MYP_3279
glycosyl transferase
GT1
MYP_3393
SAM-dependent
methyltransferase
GT1
MYP_3652
hypothetical protein
GT1
MYP_3933
hypothetical protein
GT1
MYP_4319
hypothetical protein
GT1
MYP_0560
hypothetical protein
GT1
MYP_2014
hypothetical protein
GT1
MYP_2360
a-glycosyltransferase
GT1
MYP_2361
hypothetical protein
GT1
MYP_2530
hypothetical protein
GT1
MYP_3742
glycosyltransferas
GT1
MYP_4038
hypothetical protein
GT1
MYP_4234
glycosyl transferase
GT1/GT2
MYP_1046
hypothetical protein
GT2
MYP_0044
hypothetical protein
GT2
MYP_0228
family 2 glycosyl transferase
GT2
MYP_0507
glycosyl transferase family 2
GT2
MYP_0557
putative transmembrane
glycosyltransferase
GT2
MYP_0564
glycosyl transferase family
protein
GT2
MYP_0573
glycosyl transferase family 2
GT2
MYP_1011
glycosyl transferase
GT2
MYP_1012
hypothetical protein
GT2
MYP_1013
family 2 glycosyl transferase
GT2
MYP_1014
glycosyl transferase family 2
GT2
MYP_1047
glycosyl transferase
GT2
MYP_1048
hypothetical protein
GT2
MYP_1249
hypothetical protein
GT2
MYP_1276
glycosyl transferase family 2
GT2
MYP_1281
family 2 glycosyl transferase
GT2
MYP_1291
putative colanic acid biosynthesis
acetyltransferase
GT2
MYP_1316
hypothetical protein
GT2
MYP_1673
glycosyl transferase
GT2
MYP_1684
a-glycosyltransferase
GT2
MYP_2040
glycosyl transferase family 2
GT2
MYP_2178
family 2 glycosyl transferase
GT2
MYP_2187
hypothetical protein
GT2
MYP_2239
family 2 glycosyl transferase
GT2
MYP_2483
glycosyl transferase family 2
GT2
MYP_2489
glycosyl transferase family 2
GT2
MYP_2490
glycosyl transferase family 2
GT2
MYP_3094
hypothetical protein
GT2
MYP_3177
hypothetical protein
GT2
MYP_3228
glycosyl transferase family 2
GT2
MYP_3390
glycosyl transferase family 2
GT2
MYP_3391
b-glycosyltransferase
GT2
MYP_3497
dolichyl-phosphate beta-D-
mannosyltransferase
GT2
MYP_3817
dolichol-phosphate
mannosyltransferase
GT2
MYP_3927
glycosyl transferase family 2
GT2
MYP_3935
hypothetical protein
GT2
MYP_3936
glycosyl transferase
GT2
MYP_3938
hypothetical protein
GT2
MYP_3941
putative acetyl transferase
GT2
MYP_4271
glycosyl transferase family 2
GT2
MYP_4449
b-glycosyltransferase
GT2
MYP_4494
family 2 glycosyl transferase
GT3
MYP_1785
anthranilate
phosphoribosyltransferase
GT3
MYP_2499
hypothetical protein
GT4
MYP_0931
glycosyltransferase/acetylmuram
yl pentapeptide
phosphotransferase
GT4
MYP_4218
phospho-N-acetylmuramoyl-
pentapeptide-transferase
GT5
MYP_2032
glycogen synthase
GT9
MYP_3183
hypothetical protein
GT9
MYP_3184
glycosyl transferase family 9
GT9
MYP_3190
glycosyl transferase
GT9
MYP_1186
glycosyl transferase
GT9
MYP_1410
heptosyltransferase
GT9
MYP_2362
hypothetical protein
GT9
MYP_4154
glycosyl transferase family 9
GT20
MYP_2116
hypothetical protein
GT20
MYP_3131
hypothetical protein
GT20
MYP_3690
hypothetical protein
GT25
MYP_0631
glycosyl transferase
GT28
MYP_4221
UDP-diphospho-
muramoylpentapeptide beta-N-
acetylglucosaminyltransferase
CBM
（8）
CBM6
MYP_1233
CBM6
carbohydrate
binding module
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