CAZyme3D

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Entry ID

Information for CAZyme ID: BDF78063.1

Basic Information

GenBank IDBDF78063.1
FamilyGT2
Sequence Length321
UniProt IDBDF78063.1(MOD)Download
Average pLDDT?90.41
CAZy50 ID146706
CAZy50 RepYes, BDF78063.1
Structure ClusterSC_GT2_clus508
EC Number(s)-
Substrates(s)-

Taxonomy

Tax ID638849
KingdomBacteria
PhylumSynergistota
ClassSynergistia
OrderSynergistales
FamilyDethiosulfovibrionaceae
GenusPyramidobacter
SpeciesPyramidobacter piscolens

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

MNTPLISLII  LSYNNNEYIY  GMLDSILKQD  YGRIELIISD  DGSDNFPAQT  INKYINHQVF60
PKFEKTFINH  NTTNLGTVKN  TELALKHCSG  KYVMILGADD  ELYSPNTISI  LVSEFENFAD120
DVEVFVSQAV  ICDEHLRVTN  KVFTDSRYAN  IINSDDSSLL  FSELSLRCFI  AAPSTVYKRS180
AFSKIGTLSD  KYTIVEDWAS  YLRLARAGVK  FRYKNILSVK  HREGGVSCGN  KVNSSGVHKK240
YRLDSVAICE  NEIIPYLHIV  CKEYIPNILK  NYSVYKMYYK  YSKYENILSI  LGIRKIMLPP300
LRWLLHFIAK  ILVSHAINHK  C321

Predicted 3D structure by AlphaFold2 with pLDDT = 90.41 ; 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

MNTPLISLII  LSYNNNEYIY  GMLDSILKQD  YGRIELIISD  DGSDNFPAQT  INKYINHQVF60
PKFEKTFINH  NTTNLGTVKN  TELALKHCSG  KYVMILGADD  ELYSPNTISI  LVSEFENFAD120
DVEVFVSQAV  ICDEHLRVTN  KVFTDSRYAN  IINSDDSSLL  FSELSLRCFI  AAPSTVYKRS180
AFSKIGTLSD  KYTIVEDWAS  YLRLARAGVK  FRYKNILSVK  HREGGVSCGN  KVNSSGVHKK240
YRLDSVAICE  NEIIPYLHIV  CKEYIPNILK  NYSVYKMYYK  YSKYENILSI  LGIRKIMLPP300
LRWLLHFIAK  ILVSHAINHK  C321

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(7-168)+GT2(93-267)

MNTPLISLII  LSYNNNEYIY  GMLDSILKQD  YGRIELIISD  DGSDNFPAQT  INKYINHQVF60
PKFEKTFINH  NTTNLGTVKN  TELALKHCSG  KYVMILGADD  ELYSPNTISI  LVSEFENFAD120
DVEVFVSQAV  ICDEHLRVTN  KVFTDSRYAN  IINSDDSSLL  FSELSLRCFI  AAPSTVYKRS180
AFSKIGTLSD  KYTIVEDWAS  YLRLARAGVK  FRYKNILSVK  HREGGVSCGN  KVNSSGVHKK240
YRLDSVAICE  NEIIPYLHIV  CKEYIPNILK  NYSVYKMYYK  YSKYENILSI  LGIRKIMLPP300
LRWLLHFIAK  ILVSHAINHK  C321

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