CAZyme3D

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Entry ID

Information for CAZyme ID: VFJ12729.1

Basic Information

GenBank IDVFJ12729.1
FamilyGT2
Sequence Length411
UniProt IDA0A484I7F5(100,100)Download
Average pLDDT?90.42
CAZy50 ID93339
CAZy50 RepYes, VFJ12729.1
Structure ClusterSC_GT2_clus298
EC Number(s)-
Substrates(s)-

Taxonomy

Tax ID1798806
KingdomArchaea
PhylumNitrososphaerota
ClassNitrososphaeria
OrderNitrososphaerales
FamilyNitrososphaeraceae
GenusCandidatus Nitrosocosmicus
SpeciesCandidatus Nitrosocosmicus franklandus
PDB file does not exist: ../CAZyme3D/mapped_uniprot_cazy/A0A484I7F5.pdb

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

MSLYGTRGFE  FLLDVLLLLN  LLFSIIVLGA  IGIWIYLLVM  LKRSFDLSPI  IRRKNGHYCH60
NELVSIIIPA  RNEEKYILKC  VTSLLDQNAN  NCEILLIDDN  STDSTFSLMQ  KLEDNHKIRV120
FKAGPKPKGW  IGKNWPCYVG  YVNAKGNYLM  FTDADTIHSK  NSIRDSIRTL  KEENLDVLTA180
VPKLKYPNLI  VKLVLPVLSI  FMFSRYSPMR  VNDPNVKIGY  LFGSFFVITR  DCYERVGTHE240
AVKSEIVEDG  ALGKKLKEEG  FRLKMFRGEN  LLEAFWARDF  GTLWNSLKRL  IIPLYFTDRR300
NSVVMTLGIF  LLMSFPFVIV  SYISLVIAFS  AQPNWSSYCL  LILSLICVII  ILITNYYQLK360
KANTHSTFYF  VGAPVGCMIV  SFSFIWSILT  FRNNAKVRWR  DSEYNYNEIN  L411

Predicted 3D structure by AlphaFold2 with pLDDT = 90.42 ; 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

MSLYGTRGFE  FLLDVLLLLN  LLFSIIVLGA  IGIWIYLLVM  LKRSFDLSPI  IRRKNGHYCH60
NELVSIIIPA  RNEEKYILKC  VTSLLDQNAN  NCEILLIDDN  STDSTFSLMQ  KLEDNHKIRV120
FKAGPKPKGW  IGKNWPCYVG  YVNAKGNYLM  FTDADTIHSK  NSIRDSIRTL  KEENLDVLTA180
VPKLKYPNLI  VKLVLPVLSI  FMFSRYSPMR  VNDPNVKIGY  LFGSFFVITR  DCYERVGTHE240
AVKSEIVEDG  ALGKKLKEEG  FRLKMFRGEN  LLEAFWARDF  GTLWNSLKRL  IIPLYFTDRR300
NSVVMTLGIF  LLMSFPFVIV  SYISLVIAFS  AQPNWSSYCL  LILSLICVII  ILITNYYQLK360
KANTHSTFYF  VGAPVGCMIV  SFSFIWSILT  FRNNAKVRWR  DSEYNYNEIN  L411

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) : GT2(65-233)

0

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