CAZyme3D

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Entry ID

Information for CAZyme ID: BDF11920.1

Basic Information

GenBank IDBDF11920.1
FamilyGH25
Sequence Length701
UniProt IDA0A415DYD5(100,100)Download
Average pLDDT?89.79
CAZy50 ID38575
CAZy50 RepYes, BDF11920.1
Structure ClusterSC_GH25_clus127
EC Number(s)-
Substrates(s)-

Taxonomy

Tax ID1776384
KingdomBacteria
PhylumBacillota
ClassClostridia
OrderPeptostreptococcales
FamilyAnaerovoracaceae
GenusEmergencia
SpeciesEmergencia timonensis

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

MKKTRIILTI  VTTLAALFIT  CSIAFGSNAV  VDSETYTHPS  QFDNTIVIDG  LDVSYYQGAA60
GTIDWHDVKR  QGIDYVLIRI  GYTGLSSPFS  MNSDSYFESS  FQGAKDAGIM  VGVYYYSCAT120
TIAEAQKEAR  YVLNLLDGRD  LDLPIVYDFE  YAGRIASLYK  SRSQSTSNAL  AFLKIINDAG180
YEPMFYSYRN  IMDPSFNPSG  YKINMSLIEN  KYKVWIAQYS  TDISYSRPYE  YWQYTSSGRV240
NGITGNVDCN  FWYYDNAAEK  TKSGTTSIKK  ADVSLGATSF  KYNKNKKYPK  VTVKYNGTTL300
TQGTDYKVNY  IKNVLAGTAY  AMVTGKGKYS  NTQLVPFTIS  RANLADVATV  SDVADVTYSG360
KLKVPSVKVT  HAGTTLKKNV  DYTVSYSNNR  NAGTASIKIT  GKRNYSGTIT  KTFKINKATP420
KFTGYIGYTR  TPSRPDFKLN  TKCNSDATLT  YKSSDTSIAT  VSSNGTISLK  GGTGIVYITV480
TSPETKNYKA  ATREVRITVN  PDGASTATIT  TGADAYNKTT  HDAAFNLDAS  TNSDGVLTYS540
SSNTDVATVD  SKGNVTLKGI  EGTATITIKV  AATDKYTAAS  KTVEVTVRTD  DMHPSGGIIN600
GVQNTTLKAR  SEAGKGYIRV  FWTKSYGYKV  DYFEVFRSVK  KNSGYGTEAF  YRSKTGSARS660
YKNNKALVKG  TRYYYKVRGV  REINGETYYT  KWSLKAIRTA  K701

Predicted 3D structure by AlphaFold2 with pLDDT = 89.79 ; 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

MKKTRIILTI  VTTLAALFIT  CSIAFGSNAV  VDSETYTHPS  QFDNTIVIDG  LDVSYYQGAA60
GTIDWHDVKR  QGIDYVLIRI  GYTGLSSPFS  MNSDSYFESS  FQGAKDAGIM  VGVYYYSCAT120
TIAEAQKEAR  YVLNLLDGRD  LDLPIVYDFE  YAGRIASLYK  SRSQSTSNAL  AFLKIINDAG180
YEPMFYSYRN  IMDPSFNPSG  YKINMSLIEN  KYKVWIAQYS  TDISYSRPYE  YWQYTSSGRV240
NGITGNVDCN  FWYYDNAAEK  TKSGTTSIKK  ADVSLGATSF  KYNKNKKYPK  VTVKYNGTTL300
TQGTDYKVNY  IKNVLAGTAY  AMVTGKGKYS  NTQLVPFTIS  RANLADVATV  SDVADVTYSG360
KLKVPSVKVT  HAGTTLKKNV  DYTVSYSNNR  NAGTASIKIT  GKRNYSGTIT  KTFKINKATP420
KFTGYIGYTR  TPSRPDFKLN  TKCNSDATLT  YKSSDTSIAT  VSSNGTISLK  GGTGIVYITV480
TSPETKNYKA  ATREVRITVN  PDGASTATIT  TGADAYNKTT  HDAAFNLDAS  TNSDGVLTYS540
SSNTDVATVD  SKGNVTLKGI  EGTATITIKV  AATDKYTAAS  KTVEVTVRTD  DMHPSGGIIN600
GVQNTTLKAR  SEAGKGYIRV  FWTKSYGYKV  DYFEVFRSVK  KNSGYGTEAF  YRSKTGSARS660
YKNNKALVKG  TRYYYKVRGV  REINGETYYT  KWSLKAIRTA  K701

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) : GH25(52-243)

MKKTRIILTI  VTTLAALFIT  CSIAFGSNAV  VDSETYTHPS  QFDNTIVIDG  LDVSYYQGAA60
GTIDWHDVKR  QGIDYVLIRI  GYTGLSSPFS  MNSDSYFESS  FQGAKDAGIM  VGVYYYSCAT120
TIAEAQKEAR  YVLNLLDGRD  LDLPIVYDFE  YAGRIASLYK  SRSQSTSNAL  AFLKIINDAG180
YEPMFYSYRN  IMDPSFNPSG  YKINMSLIEN  KYKVWIAQYS  TDISYSRPYE  YWQYTSSGRV240
NGITGNVDCN  FWYYDNAAEK  TKSGTTSIKK  ADVSLGATSF  KYNKNKKYPK  VTVKYNGTTL300
TQGTDYKVNY  IKNVLAGTAY  AMVTGKGKYS  NTQLVPFTIS  RANLADVATV  SDVADVTYSG360
KLKVPSVKVT  HAGTTLKKNV  DYTVSYSNNR  NAGTASIKIT  GKRNYSGTIT  KTFKINKATP420
KFTGYIGYTR  TPSRPDFKLN  TKCNSDATLT  YKSSDTSIAT  VSSNGTISLK  GGTGIVYITV480
TSPETKNYKA  ATREVRITVN  PDGASTATIT  TGADAYNKTT  HDAAFNLDAS  TNSDGVLTYS540
SSNTDVATVD  SKGNVTLKGI  EGTATITIKV  AATDKYTAAS  KTVEVTVRTD  DMHPSGGIIN600
GVQNTTLKAR  SEAGKGYIRV  FWTKSYGYKV  DYFEVFRSVK  KNSGYGTEAF  YRSKTGSARS660
YKNNKALVKG  TRYYYKVRGV  REINGETYYT  KWSLKAIRTA  K701

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