CAZyme3D

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Entry ID

Information for CAZyme ID: ATD60239.1

Basic Information

GenBank IDATD60239.1
FamilyGH5_5
Sequence Length366
UniProt IDA0A290WTK3(100,100)Download
Average pLDDT?88.98
CAZy50 ID122423
CAZy50 RepYes, ATD60239.1
Structure ClusterSC_GH5_clus99
EC Number(s)-
Substrates(s)-

Taxonomy

Tax ID368607
KingdomBacteria
PhylumPseudomonadota
ClassBetaproteobacteria
OrderBurkholderiales
FamilyOxalobacteraceae
GenusJanthinobacterium
SpeciesJanthinobacterium svalbardensis

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

MKFLFETVRQ  LSSDHREPDA  GSAMAGAERL  RRGALGVLLA  AAMAVAVPAG  AACLDKAPLR60
GVNLAGAEFN  GGKIPGTVFK  DFMYPSASDI  SYFANLGANM  LRLPFRWERL  QPVAGGPLDP120
TQLRFIAKVV  ETAKSRGMCV  LLDAHNYGAY  NNIPLGRPGA  TTEDFADFWV  RMSVAFPDVD180
TVALGLMNEP  VLTSLRQWGE  TSKATLAKLR  ENDAKHLVVI  AGGTYSGAHD  WATPRDGVSN240
ATTFASVKDP  LARTLIEVHQ  YVDSNYSGTK  ADCISPAKLT  DILEKVRVWA  VANKQSLFMG300
EFGVADTPEC  RPTLQAALTS  MRNAPWAGWT  YWSAGAWWGK  NYIFSVQPVV  GVTRNSLSLL360
QVEWQK366

Predicted 3D structure by AlphaFold2 with pLDDT = 88.98 ; 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

MKFLFETVRQ  LSSDHREPDA  GSAMAGAERL  RRGALGVLLA  AAMAVAVPAG  AACLDKAPLR60
GVNLAGAEFN  GGKIPGTVFK  DFMYPSASDI  SYFANLGANM  LRLPFRWERL  QPVAGGPLDP120
TQLRFIAKVV  ETAKSRGMCV  LLDAHNYGAY  NNIPLGRPGA  TTEDFADFWV  RMSVAFPDVD180
TVALGLMNEP  VLTSLRQWGE  TSKATLAKLR  ENDAKHLVVI  AGGTYSGAHD  WATPRDGVSN240
ATTFASVKDP  LARTLIEVHQ  YVDSNYSGTK  ADCISPAKLT  DILEKVRVWA  VANKQSLFMG300
EFGVADTPEC  RPTLQAALTS  MRNAPWAGWT  YWSAGAWWGK  NYIFSVQPVV  GVTRNSLSLL360
QVEWQK366

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_5(60-340)

MKFLFETVRQ  LSSDHREPDA  GSAMAGAERL  RRGALGVLLA  AAMAVAVPAG  AACLDKAPLR60
GVNLAGAEFN  GGKIPGTVFK  DFMYPSASDI  SYFANLGANM  LRLPFRWERL  QPVAGGPLDP120
TQLRFIAKVV  ETAKSRGMCV  LLDAHNYGAY  NNIPLGRPGA  TTEDFADFWV  RMSVAFPDVD180
TVALGLMNEP  VLTSLRQWGE  TSKATLAKLR  ENDAKHLVVI  AGGTYSGAHD  WATPRDGVSN240
ATTFASVKDP  LARTLIEVHQ  YVDSNYSGTK  ADCISPAKLT  DILEKVRVWA  VANKQSLFMG300
EFGVADTPEC  RPTLQAALTS  MRNAPWAGWT  YWSAGAWWGK  NYIFSVQPVV  GVTRNSLSLL360
QVEWQK366

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