CAZyme3D

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Entry ID

Information for CAZyme ID: SLM46174.1

Basic Information

GenBank IDSLM46174.1
FamilyGT4
Sequence Length387
UniProt IDA0A1W1HZK7(100,100)Download
Average pLDDT?90.90
CAZy50 ID106880
CAZy50 RepYes, SLM46174.1
Structure ClusterSC_GT4_clus864
EC Number(s)-
Substrates(s)-

Taxonomy

Tax ID1325564
KingdomBacteria
PhylumNitrospirota
ClassNitrospiria
OrderNitrospirales
FamilyNitrospiraceae
GenusNitrospira
SpeciesNitrospira japonica

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

MAQRILYIHG  VGAVGGAEHD  LLAVLARLDR  AAWEPHVVCP  AEGPFRTLLE  REGLTVHPLA60
LVPWRKWFSP  FVRWRSVGRL  RDLVDRLRPA  LLHVNDIWWV  PHTLGALRGA  AASPPIVAHV120
RQEIEPEKVR  RYELDRIERV  IGISEHVAES  LKAGGVETRK  LRMVYSGIDF  SRRAETAAGG180
DRSDVAEVRR  RLGVPAAALL  LGTAANLFPR  KGYEVMLRAL  PGILAVHPDV  HYLLAGTAEP240
AYAASLRALA  VDLGITERIH  MVGFQDPIRP  FLDALDLYVH  PALMEGFGIA  LVEAMAAGKA300
VVATRTGGVP  EVVEQGETGL  LVAPGDSERL  RAAVLELLGD  EPRRVRMGAK  GFSRARARFD360
LDRTVADLER  IYREAVVEQR  GGHADRH387

Predicted 3D structure by AlphaFold2 with pLDDT = 90.90 ; 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

MAQRILYIHG  VGAVGGAEHD  LLAVLARLDR  AAWEPHVVCP  AEGPFRTLLE  REGLTVHPLA60
LVPWRKWFSP  FVRWRSVGRL  RDLVDRLRPA  LLHVNDIWWV  PHTLGALRGA  AASPPIVAHV120
RQEIEPEKVR  RYELDRIERV  IGISEHVAES  LKAGGVETRK  LRMVYSGIDF  SRRAETAAGG180
DRSDVAEVRR  RLGVPAAALL  LGTAANLFPR  KGYEVMLRAL  PGILAVHPDV  HYLLAGTAEP240
AYAASLRALA  VDLGITERIH  MVGFQDPIRP  FLDALDLYVH  PALMEGFGIA  LVEAMAAGKA300
VVATRTGGVP  EVVEQGETGL  LVAPGDSERL  RAAVLELLGD  EPRRVRMGAK  GFSRARARFD360
LDRTVADLER  IYREAVVEQR  GGHADRH387

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(202-348)

MAQRILYIHG  VGAVGGAEHD  LLAVLARLDR  AAWEPHVVCP  AEGPFRTLLE  REGLTVHPLA60
LVPWRKWFSP  FVRWRSVGRL  RDLVDRLRPA  LLHVNDIWWV  PHTLGALRGA  AASPPIVAHV120
RQEIEPEKVR  RYELDRIERV  IGISEHVAES  LKAGGVETRK  LRMVYSGIDF  SRRAETAAGG180
DRSDVAEVRR  RLGVPAAALL  LGTAANLFPR  KGYEVMLRAL  PGILAVHPDV  HYLLAGTAEP240
AYAASLRALA  VDLGITERIH  MVGFQDPIRP  FLDALDLYVH  PALMEGFGIA  LVEAMAAGKA300
VVATRTGGVP  EVVEQGETGL  LVAPGDSERL  RAAVLELLGD  EPRRVRMGAK  GFSRARARFD360
LDRTVADLER  IYREAVVEQR  GGHADRH387

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