CAZyme3D

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Entry ID

Information for CAZyme ID: VDC77869.1

Basic Information

GenBank IDVDC77869.1
FamilyGT47
Sequence Length639
UniProt IDA0A3P5ZI72(100,100)Download
Average pLDDT?69.21
CAZy50 ID46874
CAZy50 RepYes, VDC77869.1
Structure ClusterSC_GT47_clus13
EC Number(s)-
Substrates(s)-

Taxonomy

Tax ID3711
KingdomEukaryota
PhylumStreptophyta
ClassMagnoliopsida
OrderBrassicales
FamilyBrassicaceae
GenusBrassica
SpeciesBrassica rapa

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

MRDYLPKYLN  AFLLAFATFA  VVFAIFIAKD  PNTSHHLYFS  TSSSSLWTSS  FSSAFITVYM60
SIFIPFHPHF  DCNKCLKLRF  NCLCYEKRKR  NGSNPGSLSW  KRDKKVEAEL  ATARALIREA120
QLNPNSTTSS  PLRDEDYVPH  GEIYRNPYAF  HRSYLLMEKM  FKIYVYEEGD  PPIFHYGLCK180
DIYSMEGLLL  NFMENDVLTY  RTRDPDKAHV  YFLPFSVVMI  LHHLFDPVVR  DKAVLERVIV240
DYVQIISEKY  PYWNTSDGFD  HFMLSCHDWG  HRATWYVKKL  FFNSIRVLCN  ANISEYFNPE300
KDAPFPEINL  QTGEINNLTG  GLDPMSRTTL  AFFAGQSHGK  IRPVLLNHWK  EKDKDILVYE360
DLPGELDYKE  MMRKSRFCIC  PSGHEVASPR  VPEAIYSGCV  PVLISENYVL  PFSDVLNWEK420
FSVSVSVKEI  PELKRILMDI  PEDRYKKLYE  GVKQVQRHIL  VNDPPKRYDQ  KILIRVTMTD480
DKARAKAMKT  AVKFKGVSAV  EIKGDHRNQI  EVTGVEVDMI  GLTNTLRRKV  ACAELVSVNK540
VEPPKPEEDK  KPEEKKPEEK  KPDEAKPEEK  KPDEKKPEEE  KQEPCHCHPP  CHQPCHQQPW600
PYGYGMPSSY  HHPCNPYGYN  ARDYIGEPVY  NHEPNCTIL639

Predicted 3D structure by AlphaFold2 with pLDDT = 69.21 ; 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

MRDYLPKYLN  AFLLAFATFA  VVFAIFIAKD  PNTSHHLYFS  TSSSSLWTSS  FSSAFITVYM60
SIFIPFHPHF  DCNKCLKLRF  NCLCYEKRKR  NGSNPGSLSW  KRDKKVEAEL  ATARALIREA120
QLNPNSTTSS  PLRDEDYVPH  GEIYRNPYAF  HRSYLLMEKM  FKIYVYEEGD  PPIFHYGLCK180
DIYSMEGLLL  NFMENDVLTY  RTRDPDKAHV  YFLPFSVVMI  LHHLFDPVVR  DKAVLERVIV240
DYVQIISEKY  PYWNTSDGFD  HFMLSCHDWG  HRATWYVKKL  FFNSIRVLCN  ANISEYFNPE300
KDAPFPEINL  QTGEINNLTG  GLDPMSRTTL  AFFAGQSHGK  IRPVLLNHWK  EKDKDILVYE360
DLPGELDYKE  MMRKSRFCIC  PSGHEVASPR  VPEAIYSGCV  PVLISENYVL  PFSDVLNWEK420
FSVSVSVKEI  PELKRILMDI  PEDRYKKLYE  GVKQVQRHIL  VNDPPKRYDQ  KILIRVTMTD480
DKARAKAMKT  AVKFKGVSAV  EIKGDHRNQI  EVTGVEVDMI  GLTNTLRRKV  ACAELVSVNK540
VEPPKPEEDK  KPEEKKPEEK  KPDEAKPEEK  KPDEKKPEEE  KQEPCHCHPP  CHQPCHQQPW600
PYGYGMPSSY  HHPCNPYGYN  ARDYIGEPVY  NHEPNCTIL639

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) : GT47(158-440)

MRDYLPKYLN  AFLLAFATFA  VVFAIFIAKD  PNTSHHLYFS  TSSSSLWTSS  FSSAFITVYM60
SIFIPFHPHF  DCNKCLKLRF  NCLCYEKRKR  NGSNPGSLSW  KRDKKVEAEL  ATARALIREA120
QLNPNSTTSS  PLRDEDYVPH  GEIYRNPYAF  HRSYLLMEKM  FKIYVYEEGD  PPIFHYGLCK180
DIYSMEGLLL  NFMENDVLTY  RTRDPDKAHV  YFLPFSVVMI  LHHLFDPVVR  DKAVLERVIV240
DYVQIISEKY  PYWNTSDGFD  HFMLSCHDWG  HRATWYVKKL  FFNSIRVLCN  ANISEYFNPE300
KDAPFPEINL  QTGEINNLTG  GLDPMSRTTL  AFFAGQSHGK  IRPVLLNHWK  EKDKDILVYE360
DLPGELDYKE  MMRKSRFCIC  PSGHEVASPR  VPEAIYSGCV  PVLISENYVL  PFSDVLNWEK420
FSVSVSVKEI  PELKRILMDI  PEDRYKKLYE  GVKQVQRHIL  VNDPPKRYDQ  KILIRVTMTD480
DKARAKAMKT  AVKFKGVSAV  EIKGDHRNQI  EVTGVEVDMI  GLTNTLRRKV  ACAELVSVNK540
VEPPKPEEDK  KPEEKKPEEK  KPDEAKPEEK  KPDEKKPEEE  KQEPCHCHPP  CHQPCHQQPW600
PYGYGMPSSY  HHPCNPYGYN  ARDYIGEPVY  NHEPNCTIL639

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