CAZyme3D

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Entry ID

Information for CAZyme ID: USF87319.1

Basic Information

GenBank IDUSF87319.1
FamilyPL39
Sequence Length1158
UniProt IDA0A9J6ZXC2(100,100)Download
Average pLDDT?55.88
CAZy50 ID8785
CAZy50 RepYes, USF87319.1
Structure ClusterSC_PL39_clus6
EC Number(s)-
Substrates(s)-

Taxonomy

Tax ID393765
KingdomBacteria
PhylumPseudomonadota
ClassGammaproteobacteria
OrderChromatiales
FamilySedimenticolaceae
GenusCandidatus Endoriftia
SpeciesCandidatus Endoriftia persephone
PDB file does not exist: ../CAZyme3D/mapped_uniprot_cazy/A0A9J6ZXC2.pdb

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

MSDPIKSMCY  LPTGTGLVLS  LLNAFVFLLL  LLTPTLFMES  GIAHAVADDE  FVFRVRGQDF60
SSKNALVAKV  RESWNAQKPA  IEAQWKAAGS  YTTALIRWTV  FDVVIFSYSI  KHSVKSVSLP120
DLPTATIGLH  TSPNTWAFEV  KIPVYWKLNV  RASLGTLNAD  ADLATEITLA  GDIRLETNGH180
YTLSLKNLRV  NANTSTNNSI  DYSILGIPFT  WRAADYLVEL  GLDAIMEPKI  RTALLSHDAN240
HNNVPDLDES  FDLASQLPSD  ALPSGPLIYP  IYTHLTAQNK  ITYSLTIEDD  TPIVELTFGS300
PITGAWHPEW  AAHPRLLYSA  TERASIVQKK  NDGLVDWYTS  IHTKAGETPQ  FATQNAEGIV360
DEAVGWPMEI  NNAHIALSAT  LVYDLEGPSA  KAFRNNALKV  LFNFHDQIGD  GLFTETWGHK420
SLHTAEILTT  LSQAYDLLLG  TNFPNNISAD  EILANEFALP  FWDWWRANLF  ISIGNTQSAR480
DLLKRRIDGK  LKRLRDLTYL  HTHIWDLAES  PNISMRNAGA  LGISALLFNQ  APDAYENISL540
AMSVIWKRLG  ISASQPINDF  LTFSKETEGS  GYSEGPNYLS  YAADLYLPFM  WAYNNLLGTA600
PDQTFINNDW  VRQNAIIIPN  LITSERARNI  HQWSLELSMP  NGLRPNIKDG  NYAAFYSGLL660
ANAKASDTDQ  RALWAWDFSR  HSQLGRRLVD  TFVAFDPTLA  AQSPETLFPS  PSRLNAETGN720
LAFRNRWTED  AIYLHLLADR  KWSVEQAIGG  LRFPKHQQED  NTSFMLYAFG  EPLALDSGYG780
SFAVRDLVNK  AGNHNLILVD  NLGPTPTSDA  FVEKTFDSEQ  LDFAEVTIAY  GGADITRNAL840
FIDDRYFVLM  DELRATAPHQ  YDWLLHGNGI  YSSAGERHLW  TTANQRQLLL  HLTNSSSDGA900
STVTADPDAL  HFNAWSNDPA  QALKHTRIAA  HEVSSANLNY  LALLFPSVSS  EALPVTASFS960
DGSSHTGIRV  DFGDYADIFI  ARQPGHPGAT  RYDVPDLQPD  IDNSDITTDA  ELLFARVAHT1020
GHILGLFGRN  LSHVTYNNKN  YLDQGTPAAL  TSTWYPDSDG  DFVPDGEDAF  PDNPSRWRQA1080
ITPMLELLLL  SSTALAGDLD  NNSCVDRSDL  RIIQSYIRSH  AATEPTPDYD  LNGDGSVNIA1140
DARFLVTQFT  NARGAPCK1158

Predicted 3D structure by AlphaFold2 with pLDDT = 55.88 ; 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

MSDPIKSMCY  LPTGTGLVLS  LLNAFVFLLL  LLTPTLFMES  GIAHAVADDE  FVFRVRGQDF60
SSKNALVAKV  RESWNAQKPA  IEAQWKAAGS  YTTALIRWTV  FDVVIFSYSI  KHSVKSVSLP120
DLPTATIGLH  TSPNTWAFEV  KIPVYWKLNV  RASLGTLNAD  ADLATEITLA  GDIRLETNGH180
YTLSLKNLRV  NANTSTNNSI  DYSILGIPFT  WRAADYLVEL  GLDAIMEPKI  RTALLSHDAN240
HNNVPDLDES  FDLASQLPSD  ALPSGPLIYP  IYTHLTAQNK  ITYSLTIEDD  TPIVELTFGS300
PITGAWHPEW  AAHPRLLYSA  TERASIVQKK  NDGLVDWYTS  IHTKAGETPQ  FATQNAEGIV360
DEAVGWPMEI  NNAHIALSAT  LVYDLEGPSA  KAFRNNALKV  LFNFHDQIGD  GLFTETWGHK420
SLHTAEILTT  LSQAYDLLLG  TNFPNNISAD  EILANEFALP  FWDWWRANLF  ISIGNTQSAR480
DLLKRRIDGK  LKRLRDLTYL  HTHIWDLAES  PNISMRNAGA  LGISALLFNQ  APDAYENISL540
AMSVIWKRLG  ISASQPINDF  LTFSKETEGS  GYSEGPNYLS  YAADLYLPFM  WAYNNLLGTA600
PDQTFINNDW  VRQNAIIIPN  LITSERARNI  HQWSLELSMP  NGLRPNIKDG  NYAAFYSGLL660
ANAKASDTDQ  RALWAWDFSR  HSQLGRRLVD  TFVAFDPTLA  AQSPETLFPS  PSRLNAETGN720
LAFRNRWTED  AIYLHLLADR  KWSVEQAIGG  LRFPKHQQED  NTSFMLYAFG  EPLALDSGYG780
SFAVRDLVNK  AGNHNLILVD  NLGPTPTSDA  FVEKTFDSEQ  LDFAEVTIAY  GGADITRNAL840
FIDDRYFVLM  DELRATAPHQ  YDWLLHGNGI  YSSAGERHLW  TTANQRQLLL  HLTNSSSDGA900
STVTADPDAL  HFNAWSNDPA  QALKHTRIAA  HEVSSANLNY  LALLFPSVSS  EALPVTASFS960
DGSSHTGIRV  DFGDYADIFI  ARQPGHPGAT  RYDVPDLQPD  IDNSDITTDA  ELLFARVAHT1020
GHILGLFGRN  LSHVTYNNKN  YLDQGTPAAL  TSTWYPDSDG  DFVPDGEDAF  PDNPSRWRQA1080
ITPMLELLLL  SSTALAGDLD  NNSCVDRSDL  RIIQSYIRSH  AATEPTPDYD  LNGDGSVNIA1140
DARFLVTQFT  NARGAPCK1158

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) : PL39(497-1049)

0

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