CAZyme Information: MGYG000001757_00051

Basic Information

• Species: Ruminococcus sp900540005
• Lineage: Bacteria; Firmicutes_A; Clostridia; Oscillospirales; Ruminococcaceae; Ruminococcus; Ruminococcus sp900540005
• CAZyme ID: MGYG000001757_00051
• CAZy Family: PL1
• CAZyme Description: hypothetical protein

CAZyme Property

Protein Length	CGC	Molecular Weight	Isoelectric Point
1171	MGYG000001757_1|CGC1	125348.54	4.433

Genome Property

Genome Assembly ID	Genome Size	Genome Type	Country	Continent
MGYG000001757	2373085	MAG	Sweden	Europe

• Gene Location: Start: 53182; End: 56697 Strand: -

Full Sequence      

MKKKNFMRRAVAALSALAVCAGAAAYDIPAVVSNITTATAISSNTRVRVDINRNDGRSAL
YAPNAEAWSFTGDSFKISTGVTVKISNGSGSGSVDAVNNKKLQKYDGTTPYLIADGVFNK
DNDTSGALKIEISGLSNGTHSFSGWHSCLYGNVDPSSLKISVNGSVKQTGIKCPVNITND
NDAGRSYVEFSGTSATILIQGEGNKSYSNAWLNAFEIDGADPFTSISNISPEDQFEHQDY
SDGLNWTAGSGAVSHEVYIGTDMNSVQNATKSSPEYKGSVTTPHFDLSSNEYSSIPTYYW
RVDEVSANGTVKGSVYSFKLNRLAFPTAEGYGRWARGGRGGEVYHVTNLNDSGEGSFRYG
VESVKGPRTIVFDVGGIIPLQSKLTIPADGGDLYIAGQTAPGDGITLINWGFGASGCSDV
IIRDVRVRPGDRGLSGVNDVSDGMGLGSTNNSIIDHCSISWATDEGFSSRSASNITFQWN
IIGESLHDSIHYNAADRSQTETHAFAASISGNTGSFHHNLLIDCTGRNWSLAGGIEQDAV
TYGGYLDIRNNVVYNWRDRTTDGGVRRLNFVNNYYKAGASSNTSLHVVSIDGNELNTGDC
QKMYVSGNIMTDTSGNQLLKATDDAWSKGKATSPLKNCTINDVKLSVPFCESYVNTDSAE
AAYEKVTNSSTGAGANVPALDYIDSRYNKEVTNGTYTYSGSKQNLKGILDSQNDCGGYPT
SANFKGGTAPTDTDRDGMPDTWETAHGLDPNDPSDGKIVSLSGDDYTNLEMYLNELAGDP
VEYNGTSSISAFETIEAEAYNSESGTKNQDREDGSHVAYIESGDYICFNSVDFENGAKSF
NANVTGIASIIELYLDSIGSSPAATIDFNGSGSWNSWQTISANIPTITGKHKLYLVFKGG
DGYLLNIDNFVFGRESVKFSGDLLKDISVNESANVTSWKILKNAAVDSPLFGDRTFTFTT
LPEKLIGAEQLITSCDAKAFTGDIADMTAVEDITLYIALDSRMKDPENAVPEWLSSYEPV
SETASTSNDLTFIFYKKNFSKGDKITIGGNAHSYSVVNYTVFAVPQEKITETTTTTTTTT
TTTTTTTTDTTTTTVLYGDANCDNKIDISDAVMILQSLSAPDKYGINGSDETHITAQGQI
NADCSNVGNGVTTMDALAVQKSIIELITLPE

Enzyme Prediction     

No EC number prediction in MGYG000001757_00051.

CAZyme Signature Domains

Family	Start	End	Evalue	family coverage
PL1	375	575	1.5e-55	0.994535519125683
CBM6	784	912	3.4e-28	0.9420289855072463

CDD Domains     

Cdd ID	Domain	E-Value	qStart	qEnd	sStart	sEnd	Domain Description
cd04084	CBM6_xylanase-like	5.61e-35	794	912	2	123	Carbohydrate Binding Module 6 (CBM6); many are appended to glycoside hydrolase (GH) family 11 and GH43 xylanase domains. This family includes carbohydrate binding module 6 (CBM6) domains that are appended mainly to glycoside hydrolase (GH) family domains, including GH3, GH11, and GH43 domains. These CBM6s are non-catalytic carbohydrate binding domains that facilitate the strong binding of the GH catalytic modules with their dedicated, insoluble substrates. Examples of proteins having CMB6s belonging to this family are Microbispora bispora GghA, a 1,4-beta-D-glucan glucohydrolase (GH3); Clostridium thermocellum xylanase U (GH11), and Penicillium purpurogenum ABF3, a bifunctional alpha-L-arabinofuranosidase/xylobiohydrolase (GH43). GH3 comprises enzymes with activities including beta-glucosidase (hydrolyzes beta-galactosidase) and beta-xylosidase (hydrolyzes 1,4-beta-D-xylosidase). GH11 family comprises enzymes with xylanase (endo-1,4-beta-xylanase) activity which catalyze the hydrolysis of beta-1,4 bonds of xylan, the major component of hemicelluloses, to generate xylooligosaccharides and xylose. GH43 includes beta-xylosidases and beta-xylanases, using aryl-glycosides as substrates. CBM6 is an unusual CBM as it represents a chimera of two distinct binding sites with different modes of binding: binding site I within the loop regions and binding site II on the concave face of the beta-sandwich fold.
pfam03422	CBM_6	3.99e-26	796	914	1	125	Carbohydrate binding module (family 6).
smart00606	CBD_IV	2.35e-25	788	912	1	129	Cellulose Binding Domain Type IV.
cd04080	CBM6_cellulase-like	2.27e-09	794	912	4	143	Carbohydrate Binding Module 6 (CBM6); appended to glycoside hydrolase (GH) domains, including GH5 (cellulase). This family includes carbohydrate binding module 6 (CBM6) domains that are appended to several glycoside hydrolase (GH) domains, including GH5 (cellulase) and GH16, as well as to coagulation factor 5/8 carbohydrate-binding domains. CBM6s are non-catalytic carbohydrate binding domains that facilitate the strong binding of the GH catalytic modules with their dedicated, insoluble substrates. The CBM6s are appended to GHs that display a diversity of substrate specificities. For some members of this family information is available about the specific substrates of the appended GH domains. It includes the CBM domains of various enzymes involved in cell wall degradation including, an extracellular beta-1,3-glucanase from Lysobacter enzymogenes encoded by the gluC gene (its catalytic domain belongs to the GH16 family), the tandem CBM domains of Pseudomonas sp. PE2 beta-1,3(4)-glucanase A (its catalytic domain also belongs to GH16), and a family 6 CBM from Cellvibrio mixtus Endoglucanase 5A (CmCBM6) which binds to the beta1,4-beta1,3-mixed linked glucans lichenan, and barley beta-glucan, cello-oligosaccharides, insoluble forms of cellulose, the beta1,3-glucan laminarin, and xylooligosaccharides, and the CBM6 of Fibrobacter succinogenes S85 XynD xylanase, appended to a GH10 domain, and Cellvibrio japonicas Cel5G appended to a GH5 (cellulase) domain. GH5 (cellulase) family includes enzymes with several known activities such as endoglucanase, beta-mannanase, and xylanase, which are involved in the degradation of cellulose and xylans. GH16 family includes enzymes with lichenase, xyloglucan endotransglycosylase (XET), and beta-agarase activities. CBM6 is an unusual CBM as it represents a chimera of two distinct binding sites with different modes of binding: binding site I within the loop regions and binding site II on the concave face of the beta-sandwich fold. For CmCBM6 it has been shown that these two binding sites have different ligand specificities.
cd02795	CBM6-CBM35-CBM36_like	6.16e-07	794	912	1	124	Carbohydrate Binding Module 6 (CBM6) and CBM35_like superfamily. Carbohydrate binding module family 6 (CBM6, family 6 CBM), also known as cellulose binding domain family VI (CBD VI), and related CBMs (CBM35 and CBM36). These are non-catalytic carbohydrate binding domains found in a range of enzymes that display activities against a diverse range of carbohydrate targets, including mannan, xylan, beta-glucans, cellulose, agarose, and arabinans. These domains facilitate the strong binding of the appended catalytic modules to their dedicated, insoluble substrates. Many of these CBMs are associated with glycoside hydrolase (GH) domains. CBM6 is an unusual CBM as it represents a chimera of two distinct binding sites with different modes of binding: binding site I within the loop regions and binding site II on the concave face of the beta-sandwich fold. CBM36s are calcium-dependent xylan binding domains. CBM35s display conserved specificity through extensive sequence similarity, but divergent function through their appended catalytic modules. This alignment model also contains the C-terminal domains of bacterial insecticidal toxins, where they may be involved in determining insect specificity through carbohydrate binding functionality.

CAZyme Hits     

Hit ID	E-Value	Query Start	Query End	Hit Start	Hit End
CBL17515.1	0.0	43	1122	53	993
AUO19291.1	0.0	1	1072	1	933
ATC64894.1	3.24e-142	47	777	129	858
QEG35767.1	1.14e-140	27	772	12	742
QDU90403.1	2.38e-140	31	778	11	728

PDB Hits     

Hit ID	E-Value	Query Start	Query End	Hit Start	Hit End	Description
5M2S_B	6.45e-24	1096	1167	27	98	R.flavefaciens' third ScaB cohesin in complex with a group 1 dockerin [Ruminococcus flavefaciens FD-1]
2V4V_A	2.26e-22	790	914	2	129	CrystalStructure of a Family 6 Carbohydrate-Binding Module from Clostridium cellulolyticum in complex with xylose [Ruminiclostridium cellulolyticum]
1GMM_A	4.96e-20	790	917	2	131	ChainA, CBM6 [Acetivibrio thermocellus],1UXX_X Chain X, Xylanase U [Acetivibrio thermocellus]
1UY1_A	9.43e-20	791	916	20	145	Bindingsub-site dissection of a family 6 carbohydrate-binding module by X-ray crystallography and isothermal titration calorimetry [Thermoclostridium stercorarium],1UY2_A Binding sub-site dissection of a family 6 carbohydrate-binding module by X-ray crystallography and isothermal titration calorimetry [Thermoclostridium stercorarium],1UY3_A Binding sub-site dissection of a family 6 carbohydrate-binding module by X-ray crystallography and isothermal titration calorimetry [Thermoclostridium stercorarium],1UY4_A Binding sub-site dissection of a family 6 carbohydrate-binding module by X-ray crystallography and isothermal titration calorimetry [Thermoclostridium stercorarium]
1W9S_A	5.26e-14	792	912	12	138	ChainA, Bh0236 Protein [Halalkalibacterium halodurans],1W9S_B Chain B, Bh0236 Protein [Halalkalibacterium halodurans],1W9T_A Chain A, Bh0236 Protein [Halalkalibacterium halodurans],1W9T_B Chain B, Bh0236 Protein [Halalkalibacterium halodurans],1W9W_A Chain A, Bh0236 Protein [Halalkalibacterium halodurans]

Swiss-Prot Hits     

Hit ID	E-Value	Query Start	Query End	Hit Start	Hit End	Description
Q5B297	2.16e-47	323	776	21	410	Probable pectate lyase C OS=Emericella nidulans (strain FGSC A4 / ATCC 38163 / CBS 112.46 / NRRL 194 / M139) OX=227321 GN=plyC PE=3 SV=1
Q0CLG7	4.29e-46	323	776	21	413	Probable pectate lyase C OS=Aspergillus terreus (strain NIH 2624 / FGSC A1156) OX=341663 GN=plyC PE=3 SV=1
B8NQQ7	8.89e-45	314	776	12	413	Probable pectate lyase C OS=Aspergillus flavus (strain ATCC 200026 / FGSC A1120 / IAM 13836 / NRRL 3357 / JCM 12722 / SRRC 167) OX=332952 GN=plyC PE=3 SV=1
A1DPF0	4.13e-44	323	776	22	414	Probable pectate lyase C OS=Neosartorya fischeri (strain ATCC 1020 / DSM 3700 / CBS 544.65 / FGSC A1164 / JCM 1740 / NRRL 181 / WB 181) OX=331117 GN=plyC PE=3 SV=1
Q2UB83	7.41e-44	314	776	12	413	Probable pectate lyase C OS=Aspergillus oryzae (strain ATCC 42149 / RIB 40) OX=510516 GN=plyC PE=3 SV=1

SignalP and Lipop Annotations

This protein is predicted as SP

Other	SP_Sec_SPI	LIPO_Sec_SPII	TAT_Tat_SPI	TATLIP_Sec_SPII	PILIN_Sec_SPIII
0.001776	0.910272	0.086990	0.000410	0.000276	0.000243

TMHMM  Annotations     

There is no transmembrane helices in MGYG000001757_00051.