CAZyme3D

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Entry ID

Information for CAZyme ID: VFJ14922.1

Basic Information

GenBank IDVFJ14922.1
FamilyGT4
Sequence Length462
UniProt IDA0A484IAY6(100,100)Download
Average pLDDT?85.03
CAZy50 ID77345
CAZy50 RepYes, VFJ14922.1
Structure ClusterSC_GT4_clus820
EC Number(s)-
Substrates(s)-

Taxonomy

Tax ID1798806
KingdomArchaea
PhylumNitrososphaerota
ClassNitrososphaeria
OrderNitrososphaerales
FamilyNitrososphaeraceae
GenusCandidatus Nitrosocosmicus
SpeciesCandidatus Nitrosocosmicus franklandus

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

MRANFVYSNL  NPCGGGERFT  LVTMKALHEM  GIDIELTTLE  QPNLSKLENA  FGKDLASVVK60
KIRRINILDM  FDEQSIHRNL  HQTNYDLIIN  THGDIDPYFH  SSLNANNMIV  YCHYPSAKLL120
LENEDNEYLT  YHLKIGRLQY  RIEPRIGVTT  QIVYKNPTQM  ASQMVESMFT  DPGKHNFDYE180
NSKKEYVNWV  KKAFDSMIRN  SFLMTNSNYS  KAAIQKEYGT  NNDILVLSPP  VDVDTIISKI240
KIEQRFDSSL  SSQVNYSDEN  GILVICRIEP  SKRIENAIYL  AKILKERKIK  TKLNIAGSLE300
PFYQDYYHDL  LQLISKLDLS  DTVKLHTDVS  FEELIELMKK  SKIFFHPREG  EHFGMSIVEA360
MSAGLIPIVP  TVGGQSEFVP  VEYQYKSLED  ASQIVSQLLT  NMSKEEMIKE  SIKMRDIAKN420
FSETNYKRQF  QLIVSRMLYN  LECDHQYGFS  SNSKIRNLFS  AK462

Predicted 3D structure by AlphaFold2 with pLDDT = 85.03 ; 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

MRANFVYSNL  NPCGGGERFT  LVTMKALHEM  GIDIELTTLE  QPNLSKLENA  FGKDLASVVK60
KIRRINILDM  FDEQSIHRNL  HQTNYDLIIN  THGDIDPYFH  SSLNANNMIV  YCHYPSAKLL120
LENEDNEYLT  YHLKIGRLQY  RIEPRIGVTT  QIVYKNPTQM  ASQMVESMFT  DPGKHNFDYE180
NSKKEYVNWV  KKAFDSMIRN  SFLMTNSNYS  KAAIQKEYGT  NNDILVLSPP  VDVDTIISKI240
KIEQRFDSSL  SSQVNYSDEN  GILVICRIEP  SKRIENAIYL  AKILKERKIK  TKLNIAGSLE300
PFYQDYYHDL  LQLISKLDLS  DTVKLHTDVS  FEELIELMKK  SKIFFHPREG  EHFGMSIVEA360
MSAGLIPIVP  TVGGQSEFVP  VEYQYKSLED  ASQIVSQLLT  NMSKEEMIKE  SIKMRDIAKN420
FSETNYKRQF  QLIVSRMLYN  LECDHQYGFS  SNSKIRNLFS  AK462

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) : GT4(257-394)

MRANFVYSNL  NPCGGGERFT  LVTMKALHEM  GIDIELTTLE  QPNLSKLENA  FGKDLASVVK60
KIRRINILDM  FDEQSIHRNL  HQTNYDLIIN  THGDIDPYFH  SSLNANNMIV  YCHYPSAKLL120
LENEDNEYLT  YHLKIGRLQY  RIEPRIGVTT  QIVYKNPTQM  ASQMVESMFT  DPGKHNFDYE180
NSKKEYVNWV  KKAFDSMIRN  SFLMTNSNYS  KAAIQKEYGT  NNDILVLSPP  VDVDTIISKI240
KIEQRFDSSL  SSQVNYSDEN  GILVICRIEP  SKRIENAIYL  AKILKERKIK  TKLNIAGSLE300
PFYQDYYHDL  LQLISKLDLS  DTVKLHTDVS  FEELIELMKK  SKIFFHPREG  EHFGMSIVEA360
MSAGLIPIVP  TVGGQSEFVP  VEYQYKSLED  ASQIVSQLLT  NMSKEEMIKE  SIKMRDIAKN420
FSETNYKRQF  QLIVSRMLYN  LECDHQYGFS  SNSKIRNLFS  AK462

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