CAZyme3D

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Entry ID

Information for CAZyme ID: WDE97741.1

Basic Information

GenBank IDWDE97741.1
FamilyGH2
Sequence Length750
UniProt IDWDE97741.1(MOD)Download
Average pLDDT?93.95
CAZy50 ID32823
CAZy50 RepYes, WDE97741.1
Structure ClusterSC_GH2_clus95
EC Number(s)-
Substrates(s)-

Taxonomy

Tax ID1658616
KingdomBacteria
PhylumLentisphaerota
ClassLentisphaeria
OrderLentisphaerales
FamilyLentisphaeraceae
GenusLentisphaera
SpeciesLentisphaera profundi

Protein Sequence:
90 < plddt <=100;
70 < plddt <= 90;
50 < plddt <= 70;
0 <= plddt <= 50;     Download help

MKKVILIVIF  ATTFVSNVIA  EWKPVEGRIM  TKWASEVDPK  NPLPEYPRPQ  LVRENWTNLN60
GLWDYAITSK  DAGQPDTFEG  EILVPYPIES  ALSGVKRKFT  PNDRLWYSRS  FNPPAVKGGE120
RLMLNFGAID  YKSEVFVNGT  SVGKHTGGYD  AFSYDITKQL  KKGKNTLVVS  VTDSTNGARG180
KQQVIKFDQP  GRIHYTANSG  IWQTVWMEKV  AETHISDLKI  VPNIDNGTVS  VTVNAKGGTA240
SVTALDEGKK  IATAKGKAGE  TIILNIPSAK  LWSPDSPFLY  DLKISLGKDT  VTSYFGMRKI300
SIEKDEKGKM  RPKLNNEFIF  MTGPLDQGYW  PDGNLTAPTD  EALKFDLEMT  KKYGFNSTRK360
HVKIEPARWF  YWTDKLGLLV  WQDMPNGGAG  TGAKGNKDGV  PKSKEQADQF  EKELRLMVDQ420
HSNYPSVIMW  VIFNESWGQY  DTPRLTKMVK  DMDPTRLVCG  GSGWYIPPAC  GDVFDRHVYK480
RAPSVAPDAT  RIGVGGEFGG  FGYVAVGNLW  VADQRESSVY  GTAVDKRHFE  KMYLEAWEET540
FANDLRVGMS  GAIYTQLTDV  ETEINGLMSY  DRKVMKIDPE  LARKAIEDRN  FPKKASARML600
VPTSEKEPQE  YYYTMTKPSD  DWFKPNADRS  SWSKGPGVIG  NKVHRNPTIN  IGTEWKSSDL660
WVARNFDLSE  FPLKRPVIRV  AYDENATIYI  NGVKALSLKK  GDNTRHLNIP  MPAEAAAALK720
KTGNVIAIHV  DNKNKSQYID  VGIGEESITW  750

Predicted 3D structure by AlphaFold2 with pLDDT = 93.95 ; Download help

pLDDT is for per-residue accuracy of the structure, which representes the quality of the residue. A higher value indicates better prediction accuracy. More detail please see AlphaFold .

Residues were colored according to plddt ( blue-> high quality; red-> low quality ).

Full Sequence:
CAPSIF:V and CAPSIF:G =99.9;
CAPSIF:V =59.9;
CAPSIF:G =40;
Non-Binding=0;     Download help

MKKVILIVIF  ATTFVSNVIA  EWKPVEGRIM  TKWASEVDPK  NPLPEYPRPQ  LVRENWTNLN60
GLWDYAITSK  DAGQPDTFEG  EILVPYPIES  ALSGVKRKFT  PNDRLWYSRS  FNPPAVKGGE120
RLMLNFGAID  YKSEVFVNGT  SVGKHTGGYD  AFSYDITKQL  KKGKNTLVVS  VTDSTNGARG180
KQQVIKFDQP  GRIHYTANSG  IWQTVWMEKV  AETHISDLKI  VPNIDNGTVS  VTVNAKGGTA240
SVTALDEGKK  IATAKGKAGE  TIILNIPSAK  LWSPDSPFLY  DLKISLGKDT  VTSYFGMRKI300
SIEKDEKGKM  RPKLNNEFIF  MTGPLDQGYW  PDGNLTAPTD  EALKFDLEMT  KKYGFNSTRK360
HVKIEPARWF  YWTDKLGLLV  WQDMPNGGAG  TGAKGNKDGV  PKSKEQADQF  EKELRLMVDQ420
HSNYPSVIMW  VIFNESWGQY  DTPRLTKMVK  DMDPTRLVCG  GSGWYIPPAC  GDVFDRHVYK480
RAPSVAPDAT  RIGVGGEFGG  FGYVAVGNLW  VADQRESSVY  GTAVDKRHFE  KMYLEAWEET540
FANDLRVGMS  GAIYTQLTDV  ETEINGLMSY  DRKVMKIDPE  LARKAIEDRN  FPKKASARML600
VPTSEKEPQE  YYYTMTKPSD  DWFKPNADRS  SWSKGPGVIG  NKVHRNPTIN  IGTEWKSSDL660
WVARNFDLSE  FPLKRPVIRV  AYDENATIYI  NGVKALSLKK  GDNTRHLNIP  MPAEAAAALK720
KTGNVIAIHV  DNKNKSQYID  VGIGEESITW  750

Carbohydrate binding residues Predicted by CAPSIF from 3D structure; Download help

Residues were colored according to prediction score:

Nonbinder, CAPSIF:G Predicted Binder, CAPSIF:V Predicted Binder, CAPSIF:V and CAPSIF:G Predicted Binder

CArbohydrate–Protein interaction Site IdentiFier (CAPSIF) that predicts non-covalent carbohydrate-binding sites on proteins: (1) a 3D-UNet voxel-based neural network model (CAPSIF:V) and (2) an equivariant graph neural network model (CAPSIF:G).

Details:
⋆B-Factor = 0.0 : Nonbinder.
⋆B-Factor = 40.0 : CAPSIF:G Predicted Binder.
⋆B-Factor = 59.9 : CAPSIF:V Predicted Binder.
⋆B-Factor = 99.9 : CAPSIF:V and CAPSIF:G Predicted Binder.

For more detail please see CAPSIF.

Full Sequence:
AA;
CE;
PL;
GH;
GT;
CBM;     Download structure help

dbCAN3 predicted domain(s) : GH2(52-563)+CBM67(661-735)

MKKVILIVIF  ATTFVSNVIA  EWKPVEGRIM  TKWASEVDPK  NPLPEYPRPQ  LVRENWTNLN60
GLWDYAITSK  DAGQPDTFEG  EILVPYPIES  ALSGVKRKFT  PNDRLWYSRS  FNPPAVKGGE120
RLMLNFGAID  YKSEVFVNGT  SVGKHTGGYD  AFSYDITKQL  KKGKNTLVVS  VTDSTNGARG180
KQQVIKFDQP  GRIHYTANSG  IWQTVWMEKV  AETHISDLKI  VPNIDNGTVS  VTVNAKGGTA240
SVTALDEGKK  IATAKGKAGE  TIILNIPSAK  LWSPDSPFLY  DLKISLGKDT  VTSYFGMRKI300
SIEKDEKGKM  RPKLNNEFIF  MTGPLDQGYW  PDGNLTAPTD  EALKFDLEMT  KKYGFNSTRK360
HVKIEPARWF  YWTDKLGLLV  WQDMPNGGAG  TGAKGNKDGV  PKSKEQADQF  EKELRLMVDQ420
HSNYPSVIMW  VIFNESWGQY  DTPRLTKMVK  DMDPTRLVCG  GSGWYIPPAC  GDVFDRHVYK480
RAPSVAPDAT  RIGVGGEFGG  FGYVAVGNLW  VADQRESSVY  GTAVDKRHFE  KMYLEAWEET540
FANDLRVGMS  GAIYTQLTDV  ETEINGLMSY  DRKVMKIDPE  LARKAIEDRN  FPKKASARML600
VPTSEKEPQE  YYYTMTKPSD  DWFKPNADRS  SWSKGPGVIG  NKVHRNPTIN  IGTEWKSSDL660
WVARNFDLSE  FPLKRPVIRV  AYDENATIYI  NGVKALSLKK  GDNTRHLNIP  MPAEAAAALK720
KTGNVIAIHV  DNKNKSQYID  VGIGEESITW  750

Predicted CAZyme domains from dbCAN; Download help

Domains were colored according to CAZyme classification: (AA), (CE), (PL), (GH), (GT), (CBM), & (Null)

dbCAN3 server is a web server for automated Carbohydrate-active enzyme ANnotation.

Details:
dbCAN3 server integrates three state-of-the-art tools/databases for automated CAZyme annotation:
⋆HMMER search for CAZyme family annotation vs. dbCAN CAZyme domain HMM database
⋆DIAMOND search for BLAST hits in the CAZy database
⋆HMMER search for CAZyme subfamily annotation vs. dbCAN-sub HMM database of CAZyme subfamilies (derived from eCAMI classification of CAZyDB families)

For more details, please see dbCAN3.

Similarites between the same cluster seqeunces from DIAMOND; Download help