CAZyme3D

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Entry ID

Information for CAZyme ID: AIK28470.2

Basic Information

GenBank IDAIK28470.2
FamilyGH5_2
Sequence Length548
UniProt IDA0A0R5NHD8(100,100)Download
Average pLDDT?86.69
CAZy50 ID59824
CAZy50 RepYes, AIK28470.2
Structure ClusterSC_GH5_clus32
EC Number(s)-
Substrates(s)-

Taxonomy

Tax ID269767
KingdomEukaryota
PhylumNematoda
ClassChromadorea
OrderRhabditida
FamilyAphelenchoididae
GenusAphelenchoides
SpeciesAphelenchoides besseyi

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

MKIVLVLTVI  VVFCGHVAEG  AFGCPEGGQM  TDYLRQQVLD  FHNNFRTNVG  RNEPINYKNN60
NFTFESGQNM  YKVKYNCELE  QYSAGPTSQC  TWEANNESKA  AGAVVIGNYF  PQYDDTTPSH120
TFYNAMRQWL  WEYYNERTSN  ETPTKANGME  GATLLHKYNI  EVGCSFRNSC  WINENGQPVK180
KRVAVCSYWR  RGTNATNVYE  KGVACKTDED  CTTYPAKCEP  QWGLCVLKSQ  PPAYGRLSYR240
GLNLTGENNQ  SVALHGMCLF  GTNNGDGIPF  YVPSAIQQLK  CNWNTNAFRA  VLDTGNGADG300
GYIMTERDFP  NKKHDKYRLD  TVIKAAIEFG  MYVIVDWHGI  AGQIALYKLQ  ATAYFSYVSE360
RFGMFPHMLY  ETFNEPYNST  WTPFLKNYHL  TMINAIRAFD  KKNVIIVSPP  MGDYPRNDTP420
IESPITGHVN  IAYTKHFYAA  SHKLNSQYNP  QKYLDAGLPL  FVTEYGTTDH  TGRTGYDAVE480
MQKWWDYLDA  NKISYFNWAL  ENAGEQRHMC  SALVNKTAVS  DMSLDSKLTT  SGRLVKTHYK540
NQNNGVSC548

Predicted 3D structure by AlphaFold2 with pLDDT = 86.69 ; 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

MKIVLVLTVI  VVFCGHVAEG  AFGCPEGGQM  TDYLRQQVLD  FHNNFRTNVG  RNEPINYKNN60
NFTFESGQNM  YKVKYNCELE  QYSAGPTSQC  TWEANNESKA  AGAVVIGNYF  PQYDDTTPSH120
TFYNAMRQWL  WEYYNERTSN  ETPTKANGME  GATLLHKYNI  EVGCSFRNSC  WINENGQPVK180
KRVAVCSYWR  RGTNATNVYE  KGVACKTDED  CTTYPAKCEP  QWGLCVLKSQ  PPAYGRLSYR240
GLNLTGENNQ  SVALHGMCLF  GTNNGDGIPF  YVPSAIQQLK  CNWNTNAFRA  VLDTGNGADG300
GYIMTERDFP  NKKHDKYRLD  TVIKAAIEFG  MYVIVDWHGI  AGQIALYKLQ  ATAYFSYVSE360
RFGMFPHMLY  ETFNEPYNST  WTPFLKNYHL  TMINAIRAFD  KKNVIIVSPP  MGDYPRNDTP420
IESPITGHVN  IAYTKHFYAA  SHKLNSQYNP  QKYLDAGLPL  FVTEYGTTDH  TGRTGYDAVE480
MQKWWDYLDA  NKISYFNWAL  ENAGEQRHMC  SALVNKTAVS  DMSLDSKLTT  SGRLVKTHYK540
NQNNGVSC548

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_2(247-497)

MKIVLVLTVI  VVFCGHVAEG  AFGCPEGGQM  TDYLRQQVLD  FHNNFRTNVG  RNEPINYKNN60
NFTFESGQNM  YKVKYNCELE  QYSAGPTSQC  TWEANNESKA  AGAVVIGNYF  PQYDDTTPSH120
TFYNAMRQWL  WEYYNERTSN  ETPTKANGME  GATLLHKYNI  EVGCSFRNSC  WINENGQPVK180
KRVAVCSYWR  RGTNATNVYE  KGVACKTDED  CTTYPAKCEP  QWGLCVLKSQ  PPAYGRLSYR240
GLNLTGENNQ  SVALHGMCLF  GTNNGDGIPF  YVPSAIQQLK  CNWNTNAFRA  VLDTGNGADG300
GYIMTERDFP  NKKHDKYRLD  TVIKAAIEFG  MYVIVDWHGI  AGQIALYKLQ  ATAYFSYVSE360
RFGMFPHMLY  ETFNEPYNST  WTPFLKNYHL  TMINAIRAFD  KKNVIIVSPP  MGDYPRNDTP420
IESPITGHVN  IAYTKHFYAA  SHKLNSQYNP  QKYLDAGLPL  FVTEYGTTDH  TGRTGYDAVE480
MQKWWDYLDA  NKISYFNWAL  ENAGEQRHMC  SALVNKTAVS  DMSLDSKLTT  SGRLVKTHYK540
NQNNGVSC548

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