CAZyme3D

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Entry ID

Information for CAZyme ID: AMY09064.1

Basic Information

GenBank IDAMY09064.1
FamilyGT4
Sequence Length559
UniProt IDA0A143PMR0(100,100)Download
Average pLDDT?69.83
CAZy50 ID58192
CAZy50 RepYes, AMY09064.1
Structure ClusterSC_GT4_clus397
EC Number(s)-
Substrates(s)-

Taxonomy

Tax ID1855912
KingdomBacteria
PhylumAcidobacteriota
ClassVicinamibacteria
OrderVicinamibacterales
FamilyVicinamibacteraceae
GenusLuteitalea
SpeciesLuteitalea pratensis

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

MRVSRCVPGT  DRVASRTSLS  PDGVEVVASP  FFTDAKRLRA  LALPRGALMT  VLRPAALLLP60
ADVLRATLER  ARQAQLDVAM  VDGVPPEVFY  VASARAHAMA  EAAGAVAGAV  TIPQAIERLR120
RLGLSVREVP  LAVARLAPED  VGWPDRALAE  ALDGSAWKEW  PAAPLLELDS  RSRLAAALRA180
HDEDRARDRE  RLRRARGPAT  CDGMDRRRSV  LVTVPAMYQS  GANAAWEEML  TALPADDIAF240
VCGRDTALRR  LLDARGFTTW  QTTDGMGPRS  ARDAAVFLEA  LHTVRPDVIH  FDGAEGSTWA300
PVAFARGTRI  VQHVRLNELE  RFQPAFAFAD  AIVAVAPHLQ  QRIAARLGPS  ARVEHIADGI360
DLQARVPVAY  GRPADGRVRC  LCVGRIEPEK  GTTQVLDISR  ALAALVPCDL  LVVGSCGHDP420
AYCDAFTADV  LAAAPPLTAT  WRSFTHPIHA  LYAHADVVLV  GSRNEALGMV  GLEALAAGCL480
LVARRSAGYA  CIVDESRDEG  LLFDGSDAPA  VVAARIVEAL  GERERFAVGG  RRKVESTFDA540
RNTAERLLAL  WRDLARAST559

Predicted 3D structure by AlphaFold2 with pLDDT = 69.83 ; 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

MRVSRCVPGT  DRVASRTSLS  PDGVEVVASP  FFTDAKRLRA  LALPRGALMT  VLRPAALLLP60
ADVLRATLER  ARQAQLDVAM  VDGVPPEVFY  VASARAHAMA  EAAGAVAGAV  TIPQAIERLR120
RLGLSVREVP  LAVARLAPED  VGWPDRALAE  ALDGSAWKEW  PAAPLLELDS  RSRLAAALRA180
HDEDRARDRE  RLRRARGPAT  CDGMDRRRSV  LVTVPAMYQS  GANAAWEEML  TALPADDIAF240
VCGRDTALRR  LLDARGFTTW  QTTDGMGPRS  ARDAAVFLEA  LHTVRPDVIH  FDGAEGSTWA300
PVAFARGTRI  VQHVRLNELE  RFQPAFAFAD  AIVAVAPHLQ  QRIAARLGPS  ARVEHIADGI360
DLQARVPVAY  GRPADGRVRC  LCVGRIEPEK  GTTQVLDISR  ALAALVPCDL  LVVGSCGHDP420
AYCDAFTADV  LAAAPPLTAT  WRSFTHPIHA  LYAHADVVLV  GSRNEALGMV  GLEALAAGCL480
LVARRSAGYA  CIVDESRDEG  LLFDGSDAPA  VVAARIVEAL  GERERFAVGG  RRKVESTFDA540
RNTAERLLAL  WRDLARAST559

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(380-514)

MRVSRCVPGT  DRVASRTSLS  PDGVEVVASP  FFTDAKRLRA  LALPRGALMT  VLRPAALLLP60
ADVLRATLER  ARQAQLDVAM  VDGVPPEVFY  VASARAHAMA  EAAGAVAGAV  TIPQAIERLR120
RLGLSVREVP  LAVARLAPED  VGWPDRALAE  ALDGSAWKEW  PAAPLLELDS  RSRLAAALRA180
HDEDRARDRE  RLRRARGPAT  CDGMDRRRSV  LVTVPAMYQS  GANAAWEEML  TALPADDIAF240
VCGRDTALRR  LLDARGFTTW  QTTDGMGPRS  ARDAAVFLEA  LHTVRPDVIH  FDGAEGSTWA300
PVAFARGTRI  VQHVRLNELE  RFQPAFAFAD  AIVAVAPHLQ  QRIAARLGPS  ARVEHIADGI360
DLQARVPVAY  GRPADGRVRC  LCVGRIEPEK  GTTQVLDISR  ALAALVPCDL  LVVGSCGHDP420
AYCDAFTADV  LAAAPPLTAT  WRSFTHPIHA  LYAHADVVLV  GSRNEALGMV  GLEALAAGCL480
LVARRSAGYA  CIVDESRDEG  LLFDGSDAPA  VVAARIVEAL  GERERFAVGG  RRKVESTFDA540
RNTAERLLAL  WRDLARAST559

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