CAZyme3D

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Entry ID

Information for CAZyme ID: ADE56252.1

Basic Information

GenBank IDADE56252.1
FamilyGH23
Sequence Length241
UniProt IDD5ECH0(100,100)Download
Average pLDDT?77.19
CAZy50 ID173990
CAZy50 RepYes, ADE56252.1
Structure ClusterSC_GH23_clus393
EC Number(s)-
Substrates(s)-

Taxonomy

Tax ID572547
KingdomBacteria
PhylumSynergistota
ClassSynergistia
OrderSynergistales
FamilyAminobacteriaceae
GenusAminobacterium
SpeciesAminobacterium colombiense

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

MRKSIQKMVL  TVLLLSMAGL  IAFTAGNRYI  HFMPRNRKET  IQSQKIQLHD  WVSEPAAASF60
YQIGRFVTNH  FSEVLSKHST  PFISLSHTIQ  DSIKTMNMLT  HFIQKQNPAI  PRDVAAQEAA120
AFMRYSTKYG  APLDLVVAVA  NTESHFNPDA  RSSYGAAGVM  QVTWRIHENL  LRANGIHSEK180
ELYTADKGIA  AGCLLISRYL  RAYGSPEKAL  GRYYGGSASV  YWGRVSKNLS  KLQRYRPKNH240
L241

Predicted 3D structure by AlphaFold2 with pLDDT = 77.19 ; 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

MRKSIQKMVL  TVLLLSMAGL  IAFTAGNRYI  HFMPRNRKET  IQSQKIQLHD  WVSEPAAASF60
YQIGRFVTNH  FSEVLSKHST  PFISLSHTIQ  DSIKTMNMLT  HFIQKQNPAI  PRDVAAQEAA120
AFMRYSTKYG  APLDLVVAVA  NTESHFNPDA  RSSYGAAGVM  QVTWRIHENL  LRANGIHSEK180
ELYTADKGIA  AGCLLISRYL  RAYGSPEKAL  GRYYGGSASV  YWGRVSKNLS  KLQRYRPKNH240
L241

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) : GH23(132-222)

MRKSIQKMVL  TVLLLSMAGL  IAFTAGNRYI  HFMPRNRKET  IQSQKIQLHD  WVSEPAAASF60
YQIGRFVTNH  FSEVLSKHST  PFISLSHTIQ  DSIKTMNMLT  HFIQKQNPAI  PRDVAAQEAA120
AFMRYSTKYG  APLDLVVAVA  NTESHFNPDA  RSSYGAAGVM  QVTWRIHENL  LRANGIHSEK180
ELYTADKGIA  AGCLLISRYL  RAYGSPEKAL  GRYYGGSASV  YWGRVSKNLS  KLQRYRPKNH240
L241

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