CAZyme3D

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Entry ID

Information for CAZyme ID: QYD71476.1

Basic Information

GenBank IDQYD71476.1
FamilyGH8
Sequence Length440
UniProt IDQYD71476.1(MOD)Download
Average pLDDT?84.95
CAZy50 ID82669
CAZy50 RepYes, QYD71476.1
Structure ClusterSC_GH8_clus48
EC Number(s)-
Substrates(s)-

Taxonomy

Tax ID2861782
KingdomBacteria
PhylumPseudomonadota
ClassBetaproteobacteria
OrderBurkholderiales
FamilyBurkholderiaceae
GenusParaburkholderia
SpeciesParaburkholderia edwinii

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

MRALRHRSAV  CALTFAALSL  AAAPTATAAA  AHATQPANCD  DWTAYRQFVA  RFVQQDGRVV60
DYSTAVQQST  SEGQSYAMFF  ALVANDRATF  DRLLGWTRSN  LSAGRFDSAN  VQLPAWQWGR120
KPDGSYGVLD  PNSASDADLW  IAYDLFEAAR  LWREPSYSKL  AWALVTQIEK  QEVATLAGLG180
PMLLPGPHGF  QTGGTTRLNP  SYLPLPVLRA  LAAEAPSGPW  ASIAANAYTL  VKTTAPRGFS240
PDWAAWRDGR  FIVDPKSGDV  GSYDAIRVYL  WAGLTDASDP  LAKPWLDAVG  GMREQIAKTG300
VPPERVMTTS  GVAQGEAPLG  FWGALLPYLR  AFNDARAANL  AQTHLAALNA  TATAAVTPGA360
AAANATPNAA  PNTTPNATPN  VAPNAAPPDA  SAPGNNPPVY  YDEVLMLFGT  GAADGRYHFD420
ATGRLLPRWE  TLCSPAHARS  440

Predicted 3D structure by AlphaFold2 with pLDDT = 84.95 ; 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

MRALRHRSAV  CALTFAALSL  AAAPTATAAA  AHATQPANCD  DWTAYRQFVA  RFVQQDGRVV60
DYSTAVQQST  SEGQSYAMFF  ALVANDRATF  DRLLGWTRSN  LSAGRFDSAN  VQLPAWQWGR120
KPDGSYGVLD  PNSASDADLW  IAYDLFEAAR  LWREPSYSKL  AWALVTQIEK  QEVATLAGLG180
PMLLPGPHGF  QTGGTTRLNP  SYLPLPVLRA  LAAEAPSGPW  ASIAANAYTL  VKTTAPRGFS240
PDWAAWRDGR  FIVDPKSGDV  GSYDAIRVYL  WAGLTDASDP  LAKPWLDAVG  GMREQIAKTG300
VPPERVMTTS  GVAQGEAPLG  FWGALLPYLR  AFNDARAANL  AQTHLAALNA  TATAAVTPGA360
AAANATPNAA  PNTTPNATPN  VAPNAAPPDA  SAPGNNPPVY  YDEVLMLFGT  GAADGRYHFD420
ATGRLLPRWE  TLCSPAHARS  440

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) : GH8(42-344)

MRALRHRSAV  CALTFAALSL  AAAPTATAAA  AHATQPANCD  DWTAYRQFVA  RFVQQDGRVV60
DYSTAVQQST  SEGQSYAMFF  ALVANDRATF  DRLLGWTRSN  LSAGRFDSAN  VQLPAWQWGR120
KPDGSYGVLD  PNSASDADLW  IAYDLFEAAR  LWREPSYSKL  AWALVTQIEK  QEVATLAGLG180
PMLLPGPHGF  QTGGTTRLNP  SYLPLPVLRA  LAAEAPSGPW  ASIAANAYTL  VKTTAPRGFS240
PDWAAWRDGR  FIVDPKSGDV  GSYDAIRVYL  WAGLTDASDP  LAKPWLDAVG  GMREQIAKTG300
VPPERVMTTS  GVAQGEAPLG  FWGALLPYLR  AFNDARAANL  AQTHLAALNA  TATAAVTPGA360
AAANATPNAA  PNTTPNATPN  VAPNAAPPDA  SAPGNNPPVY  YDEVLMLFGT  GAADGRYHFD420
ATGRLLPRWE  TLCSPAHARS  440

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