CAZyme3D

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Entry ID

Information for CAZyme ID: BCH53841.1

Basic Information

GenBank IDBCH53841.1
FamilyGT2
Sequence Length649
UniProt IDA0A6S6MPE5(100,100)Download
Average pLDDT?87.76
CAZy50 ID45340
CAZy50 RepYes, BCH53841.1
Structure ClusterSC_GT2_clus700
EC Number(s)-
Substrates(s)-

Taxonomy

Tax ID373
KingdomBacteria
PhylumPseudomonadota
ClassAlphaproteobacteria
OrderHyphomicrobiales
FamilyRhizobiaceae
GenusAgrobacterium
SpeciesAgrobacterium vitis

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

MKTNVLDGQD  STGLAQVCAA  QGPAARHLAD  KPVMISVDDP  DGCLGPSPRI  LLHRPGRVPA60
ILKRSLIVNK  AGRFLGWMPD  DLDAITLVGT  VMVPQAKEGA  AAGRQPTVTI  RTLSIAEAVL120
RVLIRWPHTA  RTLLRLLAAR  NVKGATFRFL  RHFEALSSPR  YQDWLRLRDD  GDTPPPVPSS180
SMPLVLVSVI  GKGEGRAVTR  KSLDRQTYRP  VECVDLENLA  SGLANRTTEK  DLFWLLVPAG240
VTLSPLALQW  MVDCLIHHPQ  AAGVYCDEDQ  ATRKGGRAEP  FFKPAWNLPL  VQTGWLPMDC300
VLLRPACLPQ  PVDGTNFDAN  RLVIQAAAAG  DILHLPRVLV  HRSSPRPAFT  PSRPLLQPAS360
YRPPVTVIIP  TRDRADLLSA  CLDGLLGRTD  RGELDIIVID  NDSKEDATRI  LLDRIEAEGH420
VRRLPMPGTF  NFSRACNLGV  DQARHDRILL  LNNDVEPLER  DWLGEMNAEL  DDPHVGAVGA480
LLLYPDGFVQ  HAGVTLGAGS  IARHSFHFHD  PDGGEDRGLL  AQRRHVSAVT  AACLLTRKSH540
WLQVGGMDEA  NLPVAFNDVD  YCLKLRRAGL  DIVWTPHARL  VHRESVSRGR  DDTVEKRLRF600
AGEEKVMFER  WADVIDNDPC  YNPNCSLSAG  DFVLEAAPRD  LSARSGSIR649

Predicted 3D structure by AlphaFold2 with pLDDT = 87.76 ; 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

MKTNVLDGQD  STGLAQVCAA  QGPAARHLAD  KPVMISVDDP  DGCLGPSPRI  LLHRPGRVPA60
ILKRSLIVNK  AGRFLGWMPD  DLDAITLVGT  VMVPQAKEGA  AAGRQPTVTI  RTLSIAEAVL120
RVLIRWPHTA  RTLLRLLAAR  NVKGATFRFL  RHFEALSSPR  YQDWLRLRDD  GDTPPPVPSS180
SMPLVLVSVI  GKGEGRAVTR  KSLDRQTYRP  VECVDLENLA  SGLANRTTEK  DLFWLLVPAG240
VTLSPLALQW  MVDCLIHHPQ  AAGVYCDEDQ  ATRKGGRAEP  FFKPAWNLPL  VQTGWLPMDC300
VLLRPACLPQ  PVDGTNFDAN  RLVIQAAAAG  DILHLPRVLV  HRSSPRPAFT  PSRPLLQPAS360
YRPPVTVIIP  TRDRADLLSA  CLDGLLGRTD  RGELDIIVID  NDSKEDATRI  LLDRIEAEGH420
VRRLPMPGTF  NFSRACNLGV  DQARHDRILL  LNNDVEPLER  DWLGEMNAEL  DDPHVGAVGA480
LLLYPDGFVQ  HAGVTLGAGS  IARHSFHFHD  PDGGEDRGLL  AQRRHVSAVT  AACLLTRKSH540
WLQVGGMDEA  NLPVAFNDVD  YCLKLRRAGL  DIVWTPHARL  VHRESVSRGR  DDTVEKRLRF600
AGEEKVMFER  WADVIDNDPC  YNPNCSLSAG  DFVLEAAPRD  LSARSGSIR649

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(366-488)

MKTNVLDGQD  STGLAQVCAA  QGPAARHLAD  KPVMISVDDP  DGCLGPSPRI  LLHRPGRVPA60
ILKRSLIVNK  AGRFLGWMPD  DLDAITLVGT  VMVPQAKEGA  AAGRQPTVTI  RTLSIAEAVL120
RVLIRWPHTA  RTLLRLLAAR  NVKGATFRFL  RHFEALSSPR  YQDWLRLRDD  GDTPPPVPSS180
SMPLVLVSVI  GKGEGRAVTR  KSLDRQTYRP  VECVDLENLA  SGLANRTTEK  DLFWLLVPAG240
VTLSPLALQW  MVDCLIHHPQ  AAGVYCDEDQ  ATRKGGRAEP  FFKPAWNLPL  VQTGWLPMDC300
VLLRPACLPQ  PVDGTNFDAN  RLVIQAAAAG  DILHLPRVLV  HRSSPRPAFT  PSRPLLQPAS360
YRPPVTVIIP  TRDRADLLSA  CLDGLLGRTD  RGELDIIVID  NDSKEDATRI  LLDRIEAEGH420
VRRLPMPGTF  NFSRACNLGV  DQARHDRILL  LNNDVEPLER  DWLGEMNAEL  DDPHVGAVGA480
LLLYPDGFVQ  HAGVTLGAGS  IARHSFHFHD  PDGGEDRGLL  AQRRHVSAVT  AACLLTRKSH540
WLQVGGMDEA  NLPVAFNDVD  YCLKLRRAGL  DIVWTPHARL  VHRESVSRGR  DDTVEKRLRF600
AGEEKVMFER  WADVIDNDPC  YNPNCSLSAG  DFVLEAAPRD  LSARSGSIR649

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