CAZyme3D

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Entry ID

Information for CAZyme ID: ATC63811.1

Basic Information

GenBank IDATC63811.1
FamilyGH52
Sequence Length708
UniProt IDA0A290QHI1(100,100)Download
Average pLDDT?95.25
CAZy50 ID37700
CAZy50 RepYes, ATC63811.1
Structure ClusterSC_GH52_clus2
EC Number(s)-
Substrates(s)-

Taxonomy

Tax ID2576891
KingdomBacteria
PhylumVerrucomicrobiota
ClassOpitutae
OrderOpitutales
FamilyOpitutaceae
GenusNibricoccus
SpeciesNibricoccus aquaticus

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

MPSAPSSAPL  ESYHTQHSPF  GAFASFTLGL  VDSPGGFGHA  LRGPAQQNLY  IGFRPSTKSD60
WNLLPYFTPP  KSNEVAFVGE  LAVPQAPKNY  RSLRPGDYDR  QLGWASDTWR  AGDDRFTFSL120
LTPFSRVPDP  AKLTAADARL  HLAPLVSGFI  EYDNRQGKTP  AELIFGLGEP  DRGLHPLSDD180
ASPLAGFACG  TEYAYATKPG  RGIELRQGFD  VFSPKFRDYR  GLLVIGGETA  LVFTVPAGQK240
KRFPLVLAFY  NAGQITTGLP  ASYAYTRHFS  GLPDVLAHGL  KNHARYAKIA  RDRDAELTRS300
RLNVDQQFLL  AQSTHSYFGN  TQLLWHRGKP  LWVVNEGEYR  MMNTFDLTVD  HVFFELEWLP360
WAVRDTLDLF  VRRYGYTDRI  RTADRLAPGG  LAFTHDMGVM  NHFTPPGRSS  YECDDVEGCF420
SHMTMEQLLN  WILTAVTYAE  KTGDRPWLVR  KKKILLACAE  SLRRRDHPDP  KKRDGILKHD480
SSRTGTHGWE  ITTYDSLDVS  LGQARNNLYL  AVKTLGAWVL  LENAFARLGL  KKESTSARAT540
SDLLARSITQ  KFDPATGFFP  AVFEKGNQSR  IIPLIEGLVY  PLYLGYRDAI  DPAGRFAPLF600
DQFRQHLAQV  FKRGICLDET  SGGWKMSSTS  RNTWFSKIAI  SQHVIRQLFP  ETLSPEALAA660
DRVHADWQRR  PGCGAFAMCD  QILSDTGVVC  GSRYYPRGVT  AWLWLLEK708

Predicted 3D structure by AlphaFold2 with pLDDT = 95.25 ; 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

MPSAPSSAPL  ESYHTQHSPF  GAFASFTLGL  VDSPGGFGHA  LRGPAQQNLY  IGFRPSTKSD60
WNLLPYFTPP  KSNEVAFVGE  LAVPQAPKNY  RSLRPGDYDR  QLGWASDTWR  AGDDRFTFSL120
LTPFSRVPDP  AKLTAADARL  HLAPLVSGFI  EYDNRQGKTP  AELIFGLGEP  DRGLHPLSDD180
ASPLAGFACG  TEYAYATKPG  RGIELRQGFD  VFSPKFRDYR  GLLVIGGETA  LVFTVPAGQK240
KRFPLVLAFY  NAGQITTGLP  ASYAYTRHFS  GLPDVLAHGL  KNHARYAKIA  RDRDAELTRS300
RLNVDQQFLL  AQSTHSYFGN  TQLLWHRGKP  LWVVNEGEYR  MMNTFDLTVD  HVFFELEWLP360
WAVRDTLDLF  VRRYGYTDRI  RTADRLAPGG  LAFTHDMGVM  NHFTPPGRSS  YECDDVEGCF420
SHMTMEQLLN  WILTAVTYAE  KTGDRPWLVR  KKKILLACAE  SLRRRDHPDP  KKRDGILKHD480
SSRTGTHGWE  ITTYDSLDVS  LGQARNNLYL  AVKTLGAWVL  LENAFARLGL  KKESTSARAT540
SDLLARSITQ  KFDPATGFFP  AVFEKGNQSR  IIPLIEGLVY  PLYLGYRDAI  DPAGRFAPLF600
DQFRQHLAQV  FKRGICLDET  SGGWKMSSTS  RNTWFSKIAI  SQHVIRQLFP  ETLSPEALAA660
DRVHADWQRR  PGCGAFAMCD  QILSDTGVVC  GSRYYPRGVT  AWLWLLEK708

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) : GH52(26-438)

MPSAPSSAPL  ESYHTQHSPF  GAFASFTLGL  VDSPGGFGHA  LRGPAQQNLY  IGFRPSTKSD60
WNLLPYFTPP  KSNEVAFVGE  LAVPQAPKNY  RSLRPGDYDR  QLGWASDTWR  AGDDRFTFSL120
LTPFSRVPDP  AKLTAADARL  HLAPLVSGFI  EYDNRQGKTP  AELIFGLGEP  DRGLHPLSDD180
ASPLAGFACG  TEYAYATKPG  RGIELRQGFD  VFSPKFRDYR  GLLVIGGETA  LVFTVPAGQK240
KRFPLVLAFY  NAGQITTGLP  ASYAYTRHFS  GLPDVLAHGL  KNHARYAKIA  RDRDAELTRS300
RLNVDQQFLL  AQSTHSYFGN  TQLLWHRGKP  LWVVNEGEYR  MMNTFDLTVD  HVFFELEWLP360
WAVRDTLDLF  VRRYGYTDRI  RTADRLAPGG  LAFTHDMGVM  NHFTPPGRSS  YECDDVEGCF420
SHMTMEQLLN  WILTAVTYAE  KTGDRPWLVR  KKKILLACAE  SLRRRDHPDP  KKRDGILKHD480
SSRTGTHGWE  ITTYDSLDVS  LGQARNNLYL  AVKTLGAWVL  LENAFARLGL  KKESTSARAT540
SDLLARSITQ  KFDPATGFFP  AVFEKGNQSR  IIPLIEGLVY  PLYLGYRDAI  DPAGRFAPLF600
DQFRQHLAQV  FKRGICLDET  SGGWKMSSTS  RNTWFSKIAI  SQHVIRQLFP  ETLSPEALAA660
DRVHADWQRR  PGCGAFAMCD  QILSDTGVVC  GSRYYPRGVT  AWLWLLEK708

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