CAZyme3D

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Entry ID

Information for CAZyme ID: AGN25469.1

Basic Information

GenBank IDAGN25469.1
FamilyGT4
Sequence Length355
UniProt IDR9T4K0(100,100)Download
Average pLDDT?89.43
CAZy50 ID129358
CAZy50 RepYes, AGN25469.1
Structure ClusterSC_GT4_clus864
EC Number(s)-
Substrates(s)-

Taxonomy

Tax ID1295009
KingdomArchaea
PhylumCandidatus Thermoplasmatota
ClassThermoplasmata
OrderMethanomassiliicoccales
FamilyMethanomassiliicoccaceae
GenusMethanomassiliicoccus
SpeciesCandidatus Methanomassiliicoccus intestinalis

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

MKVVVLCRKL  EGMPANGFDR  YSHDLVENLS  KLPEVEIILP  NQTPSLDIRS  YGSVASPLYY60
DIFLPIVTIL  RGRMKGDVFH  AVTDGQAVVF  PWLKGKKILT  MHHVDKTPPI  GVKEKIFRVF120
YGFGTRMGVE  HADMIICISE  QTKKEIQEAY  GVEDSRLCVI  NHSVSSRFQQ  LPDVKKERVV180
GYLGALKNRK  NLEFMIRTAA  AYKKMYPDDK  VIFSICGEGP  ENGRLKSLTA  QLALDDTIEF240
RGKIPDDGLV  NTYNSFKLFC  LPSLQEGFGL  PVIEAERCGV  PVLTIADAMI  PEEVVTAATK300
CQDEEDMAAK  IHLLLDDETA  YQEAVDKSLK  HSQIFSPECT  AKQTLEVYQK  VLGRS355

Predicted 3D structure by AlphaFold2 with pLDDT = 89.43 ; 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

MKVVVLCRKL  EGMPANGFDR  YSHDLVENLS  KLPEVEIILP  NQTPSLDIRS  YGSVASPLYY60
DIFLPIVTIL  RGRMKGDVFH  AVTDGQAVVF  PWLKGKKILT  MHHVDKTPPI  GVKEKIFRVF120
YGFGTRMGVE  HADMIICISE  QTKKEIQEAY  GVEDSRLCVI  NHSVSSRFQQ  LPDVKKERVV180
GYLGALKNRK  NLEFMIRTAA  AYKKMYPDDK  VIFSICGEGP  ENGRLKSLTA  QLALDDTIEF240
RGKIPDDGLV  NTYNSFKLFC  LPSLQEGFGL  PVIEAERCGV  PVLTIADAMI  PEEVVTAATK300
CQDEEDMAAK  IHLLLDDETA  YQEAVDKSLK  HSQIFSPECT  AKQTLEVYQK  VLGRS355

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) : GT4(174-323)

MKVVVLCRKL  EGMPANGFDR  YSHDLVENLS  KLPEVEIILP  NQTPSLDIRS  YGSVASPLYY60
DIFLPIVTIL  RGRMKGDVFH  AVTDGQAVVF  PWLKGKKILT  MHHVDKTPPI  GVKEKIFRVF120
YGFGTRMGVE  HADMIICISE  QTKKEIQEAY  GVEDSRLCVI  NHSVSSRFQQ  LPDVKKERVV180
GYLGALKNRK  NLEFMIRTAA  AYKKMYPDDK  VIFSICGEGP  ENGRLKSLTA  QLALDDTIEF240
RGKIPDDGLV  NTYNSFKLFC  LPSLQEGFGL  PVIEAERCGV  PVLTIADAMI  PEEVVTAATK300
CQDEEDMAAK  IHLLLDDETA  YQEAVDKSLK  HSQIFSPECT  AKQTLEVYQK  VLGRS355

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