CAZyme3D

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Entry ID

Information for CAZyme ID: ACV79540.1

Basic Information

GenBank IDACV79540.1
FamilyCBM5, GH18
Sequence Length537
UniProt IDC8XCT7(100,100)Download
Average pLDDT?84.72
CAZy50 ID61718
CAZy50 RepYes, ACV79540.1
Structure ClusterSC_CBM5_clus12, SC_CBM5_clus3, SC_GH18_clus298
EC Number(s)-
Substrates(s)-

Taxonomy

Tax ID479431
KingdomBacteria
PhylumActinomycetota
ClassActinomycetes
OrderNakamurellales
FamilyNakamurellaceae
GenusNakamurella
SpeciesNakamurella multipartita

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

MNEGDVLDTE  ATVAPANEEG  RHLSWFRVFL  VVAVVAAAAG  GGWYWFRQQE  EAAVAAIGPP60
SWFAPYVDVT  STPSYAFEDA  TSASAVLAFI  VSAKDTPCDP  SWGGVYSMDQ  AADQLDLDRR120
VARLRQLGGT  VSVSFGGAAN  SELAIGCTDV  AALTAAYASV  VDRYDLTDID  LDIEGQASMT180
NEVNQRRAQA  IAALVAQRQA  AGKNLDVWLT  LPVISTGLTT  EGQAVVSSML  AGGARPAGIN240
AMTMDYGEPF  PEGRTMAQQG  ELALTALQQQ  IQDAWSAAGL  DLSDSQAWNL  IGATPMIGQN300
DIPAEVFSLD  DANQTVAFAQ  QHKLSRLSMW  SANRDQSCGP  NYPDVKVVSD  VCSGIEQQPG360
AFGAIFVQFG  SGQARASTTD  APTTGTTAPA  PTSTGAGQPA  RATTSEIVDD  PASSPYQIWN420
ENQGYPKGTK  VVWHKNVYQA  KWYTQGDQPD  LPVASANQSP  WSLIGPVLPG  DTPVPTPTLP480
AGTYPEWSPT  DVYVAGSRVL  HDGIGWQARF  WSQGDVPGAP  PTSPDKPSPW  ELITQPN537

Predicted 3D structure by AlphaFold2 with pLDDT = 84.72 ; 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

MNEGDVLDTE  ATVAPANEEG  RHLSWFRVFL  VVAVVAAAAG  GGWYWFRQQE  EAAVAAIGPP60
SWFAPYVDVT  STPSYAFEDA  TSASAVLAFI  VSAKDTPCDP  SWGGVYSMDQ  AADQLDLDRR120
VARLRQLGGT  VSVSFGGAAN  SELAIGCTDV  AALTAAYASV  VDRYDLTDID  LDIEGQASMT180
NEVNQRRAQA  IAALVAQRQA  AGKNLDVWLT  LPVISTGLTT  EGQAVVSSML  AGGARPAGIN240
AMTMDYGEPF  PEGRTMAQQG  ELALTALQQQ  IQDAWSAAGL  DLSDSQAWNL  IGATPMIGQN300
DIPAEVFSLD  DANQTVAFAQ  QHKLSRLSMW  SANRDQSCGP  NYPDVKVVSD  VCSGIEQQPG360
AFGAIFVQFG  SGQARASTTD  APTTGTTAPA  PTSTGAGQPA  RATTSEIVDD  PASSPYQIWN420
ENQGYPKGTK  VVWHKNVYQA  KWYTQGDQPD  LPVASANQSP  WSLIGPVLPG  DTPVPTPTLP480
AGTYPEWSPT  DVYVAGSRVL  HDGIGWQARF  WSQGDVPGAP  PTSPDKPSPW  ELITQPN537

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) : GH18(75-289)+CBM5(416-461)+CBM5(484-530)

MNEGDVLDTE  ATVAPANEEG  RHLSWFRVFL  VVAVVAAAAG  GGWYWFRQQE  EAAVAAIGPP60
SWFAPYVDVT  STPSYAFEDA  TSASAVLAFI  VSAKDTPCDP  SWGGVYSMDQ  AADQLDLDRR120
VARLRQLGGT  VSVSFGGAAN  SELAIGCTDV  AALTAAYASV  VDRYDLTDID  LDIEGQASMT180
NEVNQRRAQA  IAALVAQRQA  AGKNLDVWLT  LPVISTGLTT  EGQAVVSSML  AGGARPAGIN240
AMTMDYGEPF  PEGRTMAQQG  ELALTALQQQ  IQDAWSAAGL  DLSDSQAWNL  IGATPMIGQN300
DIPAEVFSLD  DANQTVAFAQ  QHKLSRLSMW  SANRDQSCGP  NYPDVKVVSD  VCSGIEQQPG360
AFGAIFVQFG  SGQARASTTD  APTTGTTAPA  PTSTGAGQPA  RATTSEIVDD  PASSPYQIWN420
ENQGYPKGTK  VVWHKNVYQA  KWYTQGDQPD  LPVASANQSP  WSLIGPVLPG  DTPVPTPTLP480
AGTYPEWSPT  DVYVAGSRVL  HDGIGWQARF  WSQGDVPGAP  PTSPDKPSPW  ELITQPN537

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