CAZyme3D

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Entry ID

Information for CAZyme ID: AFU98526.1

Basic Information

GenBank IDAFU98526.1
FamilyCBM6, GH5_47
Sequence Length853
UniProt IDK4KHM6(100,100)Download
Average pLDDT?87.05
CAZy50 ID22671
CAZy50 RepYes, AFU98526.1
Structure ClusterSC_CBM6_clus39, SC_GH5_clus72
EC Number(s)-
Substrates(s)-

Taxonomy

Tax ID1117647
KingdomBacteria
PhylumPseudomonadota
ClassGammaproteobacteria
OrderCellvibrionales
FamilyCellvibrionaceae
GenusSimiduia
SpeciesSimiduia agarivorans

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

MKKSLATAIE  KINRARVMPM  AATVMAAALL  GACGSEAPNP  IVPVPPAFEE  PESGDENYSF60
LKANGTLWAN  AEGQKVSLRG  INLGNWLSME  LWMFDASENP  LGAGIPDQCT  LESVLETRFG120
ADEKERIIKL  HRDSWITEAD  WDLMAEAGFN  LVRIPFPYNL  LEDDAAPKTL  RADAWDYLDD180
AIAKAKARKM  YVVLDLHGAA  GGQGWEQHTG  CAGKNELWDS  AENRDRTVWL  WQQIASKYKG240
EATVAGYGLL  NEPWGTDSET  LAEFSVELYQ  AIRAIDQDHI  IILAGHNADG  ISGYGDPLDL300
GMENVAFDLH  FYPGLFGWGE  IGYAVHRDWI  TCGESGQDGV  CDWARLARNV  YTPTLVGEMQ360
PWTGLGDLGG  EITRASFDKY  NLLNWAATAW  SLKTTSKSGG  VGNGQWGLVT  NNGNQLLTKA420
QTWSCNNWES  TFGNACDVPA  RSTVPYAGEG  TKTMYLAIKT  GSFNGTDVSY  DSIALTNDAT480
GDNLVVNGEF  GSDTGWTKVQ  VWGDPHNYDY  NYAAGEIAGV  DTSPSLRVTA  PAGHNTVIYQ540
AVEVQGGQSY  TLSGRFKDNG  DGGNDMWAEI  YLVPDEPQWW  QDVDGRALPK  VDINNDSIEA600
IEDFFSAFAT  MDYVQNDAVM  TSLKSDAPAT  IFTNIPGKAT  DLVITVSDTA  NDVSWAASSG660
DVEGYRVYRS  TAPRSGFEVI  AEVDQARFSD  QDLVPETTYY  YYVAAYNSTD  EGYASDIVAS720
GPTFYTLPTK  IEAENYTAAH  PGVQTEGSGD  IGGGQNIGHF  EPGRWVEYEI  KVDTAGDYQL780
DFRLASLVGD  VRFAVELDGV  VLDTVTVPNT  GGWQTYETVT  TSVTLPAGAG  KLRLNSIDNQ840
WNLNWLEFKG  PNN853

Predicted 3D structure by AlphaFold2 with pLDDT = 87.05 ; 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

MKKSLATAIE  KINRARVMPM  AATVMAAALL  GACGSEAPNP  IVPVPPAFEE  PESGDENYSF60
LKANGTLWAN  AEGQKVSLRG  INLGNWLSME  LWMFDASENP  LGAGIPDQCT  LESVLETRFG120
ADEKERIIKL  HRDSWITEAD  WDLMAEAGFN  LVRIPFPYNL  LEDDAAPKTL  RADAWDYLDD180
AIAKAKARKM  YVVLDLHGAA  GGQGWEQHTG  CAGKNELWDS  AENRDRTVWL  WQQIASKYKG240
EATVAGYGLL  NEPWGTDSET  LAEFSVELYQ  AIRAIDQDHI  IILAGHNADG  ISGYGDPLDL300
GMENVAFDLH  FYPGLFGWGE  IGYAVHRDWI  TCGESGQDGV  CDWARLARNV  YTPTLVGEMQ360
PWTGLGDLGG  EITRASFDKY  NLLNWAATAW  SLKTTSKSGG  VGNGQWGLVT  NNGNQLLTKA420
QTWSCNNWES  TFGNACDVPA  RSTVPYAGEG  TKTMYLAIKT  GSFNGTDVSY  DSIALTNDAT480
GDNLVVNGEF  GSDTGWTKVQ  VWGDPHNYDY  NYAAGEIAGV  DTSPSLRVTA  PAGHNTVIYQ540
AVEVQGGQSY  TLSGRFKDNG  DGGNDMWAEI  YLVPDEPQWW  QDVDGRALPK  VDINNDSIEA600
IEDFFSAFAT  MDYVQNDAVM  TSLKSDAPAT  IFTNIPGKAT  DLVITVSDTA  NDVSWAASSG660
DVEGYRVYRS  TAPRSGFEVI  AEVDQARFSD  QDLVPETTYY  YYVAAYNSTD  EGYASDIVAS720
GPTFYTLPTK  IEAENYTAAH  PGVQTEGSGD  IGGGQNIGHF  EPGRWVEYEI  KVDTAGDYQL780
DFRLASLVGD  VRFAVELDGV  VLDTVTVPNT  GGWQTYETVT  TSVTLPAGAG  KLRLNSIDNQ840
WNLNWLEFKG  PNN853

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) : GH5_47(115-344)+CBM16(483-560)+CBM6(730-849)

MKKSLATAIE  KINRARVMPM  AATVMAAALL  GACGSEAPNP  IVPVPPAFEE  PESGDENYSF60
LKANGTLWAN  AEGQKVSLRG  INLGNWLSME  LWMFDASENP  LGAGIPDQCT  LESVLETRFG120
ADEKERIIKL  HRDSWITEAD  WDLMAEAGFN  LVRIPFPYNL  LEDDAAPKTL  RADAWDYLDD180
AIAKAKARKM  YVVLDLHGAA  GGQGWEQHTG  CAGKNELWDS  AENRDRTVWL  WQQIASKYKG240
EATVAGYGLL  NEPWGTDSET  LAEFSVELYQ  AIRAIDQDHI  IILAGHNADG  ISGYGDPLDL300
GMENVAFDLH  FYPGLFGWGE  IGYAVHRDWI  TCGESGQDGV  CDWARLARNV  YTPTLVGEMQ360
PWTGLGDLGG  EITRASFDKY  NLLNWAATAW  SLKTTSKSGG  VGNGQWGLVT  NNGNQLLTKA420
QTWSCNNWES  TFGNACDVPA  RSTVPYAGEG  TKTMYLAIKT  GSFNGTDVSY  DSIALTNDAT480
GDNLVVNGEF  GSDTGWTKVQ  VWGDPHNYDY  NYAAGEIAGV  DTSPSLRVTA  PAGHNTVIYQ540
AVEVQGGQSY  TLSGRFKDNG  DGGNDMWAEI  YLVPDEPQWW  QDVDGRALPK  VDINNDSIEA600
IEDFFSAFAT  MDYVQNDAVM  TSLKSDAPAT  IFTNIPGKAT  DLVITVSDTA  NDVSWAASSG660
DVEGYRVYRS  TAPRSGFEVI  AEVDQARFSD  QDLVPETTYY  YYVAAYNSTD  EGYASDIVAS720
GPTFYTLPTK  IEAENYTAAH  PGVQTEGSGD  IGGGQNIGHF  EPGRWVEYEI  KVDTAGDYQL780
DFRLASLVGD  VRFAVELDGV  VLDTVTVPNT  GGWQTYETVT  TSVTLPAGAG  KLRLNSIDNQ840
WNLNWLEFKG  PNN853

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