CAZyme3D

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Entry ID

Information for CAZyme ID: QRM29889.1

Basic Information

GenBank IDQRM29889.1
FamilyGH2
Sequence Length916
UniProt IDA0A974T441(100,100)Download
Average pLDDT?95.13
CAZy50 ID18421
CAZy50 RepYes, QRM29889.1
Structure ClusterSC_GH2_clus107
EC Number(s)-
Substrates(s)-

Taxonomy

Tax ID2807101
KingdomBacteria
PhylumPseudomonadota
ClassAlphaproteobacteria
OrderHyphomicrobiales
FamilyMethylobacteriaceae
GenusMicrovirga
SpeciesMicrovirga sp. VF16

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

MQDNRISLDG  TWEFLHVADD  RLSGPAEVRQ  ITVPSPWQAQ  FADLRMRAGI  GIYRRTIEID60
EAWLHDSVWI  RFGAVFHNTK  VFINGEMVGH  NEGGFLPFSF  DVTAYLKPGA  NEIKVRVDSP120
TDNPAEFPDS  PFAEIPFGKQ  SWYGPLSGIW  QSVCLERRIS  DHMSRVRLVP  NLTTGRVTSG180
VFFARPLTDA  TQIRIEVTDP  SGDVVLDEMH  ETQVGVTSMP  FEFTLDDVRA  WSPDHPNLYR240
IRLELRRNGE  VRDEIADHFG  FRSIETRNGK  FYLNGEPLYL  RSALDQDYYP  DTICTVPSVE300
FLEDQFRKVK  ELGLNCLRCH  IKAADPRYYE  VADRMGVLIW  TELPNGGMAT  DRSRGRKEKL360
LKGIVDRDGN  HPSIIIWTII  NENWGVDLVN  DADHRDWLKR  TFAWLKAYDP  TRLVVDNSPL420
APSFHVESDI  ADYHFYAAYP  DHRAQWDIFV  DELSSRASWL  YSPHGDAVIT  GREPLMCSEF480
GNWGLPYPKD  LRDEKGEEPW  WFETGHDWGE  GVMYAHGVEN  RFSDWSMDRV  FGDLRRFVIA540
AQWQQFRALK  YEIESMRRKP  NLAGYVITEL  HDCHWESNGL  LDMRRNPRVF  HELFHIINTD600
TVIAPKWERA  SYWSGETVAL  ELCIAHGAGQ  PLEDCQLEIS  VCSETERLPL  PVIKAPDVFN660
LGRVEIPLPA  VDEPSLRRIS  FDLRAPGGKL  IAHNHHDIAI  HSKRTKPVHA  RELVWSPDED720
IRERFRALGY  NIARAFEEST  LIVSRTHNKA  IADHVRAGAK  LLLLPEEDMT  LYPFFPHWQA780
VRVQARAGTL  WSGDWASSFG  WLRRSGHFAR  FPSGPLLDET  MDRVLPDYVI  VNCNLLDFQA840
RVFAGLVVGW  IHKPVALGVE  RSYGRGRMVT  STLRLFRDQP  LADPTATLLT  DALVELAVES900
RAARLEEAVR  AAEAAA916

Predicted 3D structure by AlphaFold2 with pLDDT = 95.13 ; 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

MQDNRISLDG  TWEFLHVADD  RLSGPAEVRQ  ITVPSPWQAQ  FADLRMRAGI  GIYRRTIEID60
EAWLHDSVWI  RFGAVFHNTK  VFINGEMVGH  NEGGFLPFSF  DVTAYLKPGA  NEIKVRVDSP120
TDNPAEFPDS  PFAEIPFGKQ  SWYGPLSGIW  QSVCLERRIS  DHMSRVRLVP  NLTTGRVTSG180
VFFARPLTDA  TQIRIEVTDP  SGDVVLDEMH  ETQVGVTSMP  FEFTLDDVRA  WSPDHPNLYR240
IRLELRRNGE  VRDEIADHFG  FRSIETRNGK  FYLNGEPLYL  RSALDQDYYP  DTICTVPSVE300
FLEDQFRKVK  ELGLNCLRCH  IKAADPRYYE  VADRMGVLIW  TELPNGGMAT  DRSRGRKEKL360
LKGIVDRDGN  HPSIIIWTII  NENWGVDLVN  DADHRDWLKR  TFAWLKAYDP  TRLVVDNSPL420
APSFHVESDI  ADYHFYAAYP  DHRAQWDIFV  DELSSRASWL  YSPHGDAVIT  GREPLMCSEF480
GNWGLPYPKD  LRDEKGEEPW  WFETGHDWGE  GVMYAHGVEN  RFSDWSMDRV  FGDLRRFVIA540
AQWQQFRALK  YEIESMRRKP  NLAGYVITEL  HDCHWESNGL  LDMRRNPRVF  HELFHIINTD600
TVIAPKWERA  SYWSGETVAL  ELCIAHGAGQ  PLEDCQLEIS  VCSETERLPL  PVIKAPDVFN660
LGRVEIPLPA  VDEPSLRRIS  FDLRAPGGKL  IAHNHHDIAI  HSKRTKPVHA  RELVWSPDED720
IRERFRALGY  NIARAFEEST  LIVSRTHNKA  IADHVRAGAK  LLLLPEEDMT  LYPFFPHWQA780
VRVQARAGTL  WSGDWASSFG  WLRRSGHFAR  FPSGPLLDET  MDRVLPDYVI  VNCNLLDFQA840
RVFAGLVVGW  IHKPVALGVE  RSYGRGRMVT  STLRLFRDQP  LADPTATLLT  DALVELAVES900
RAARLEEAVR  AAEAAA916

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) : GH2(2-574)

MQDNRISLDG  TWEFLHVADD  RLSGPAEVRQ  ITVPSPWQAQ  FADLRMRAGI  GIYRRTIEID60
EAWLHDSVWI  RFGAVFHNTK  VFINGEMVGH  NEGGFLPFSF  DVTAYLKPGA  NEIKVRVDSP120
TDNPAEFPDS  PFAEIPFGKQ  SWYGPLSGIW  QSVCLERRIS  DHMSRVRLVP  NLTTGRVTSG180
VFFARPLTDA  TQIRIEVTDP  SGDVVLDEMH  ETQVGVTSMP  FEFTLDDVRA  WSPDHPNLYR240
IRLELRRNGE  VRDEIADHFG  FRSIETRNGK  FYLNGEPLYL  RSALDQDYYP  DTICTVPSVE300
FLEDQFRKVK  ELGLNCLRCH  IKAADPRYYE  VADRMGVLIW  TELPNGGMAT  DRSRGRKEKL360
LKGIVDRDGN  HPSIIIWTII  NENWGVDLVN  DADHRDWLKR  TFAWLKAYDP  TRLVVDNSPL420
APSFHVESDI  ADYHFYAAYP  DHRAQWDIFV  DELSSRASWL  YSPHGDAVIT  GREPLMCSEF480
GNWGLPYPKD  LRDEKGEEPW  WFETGHDWGE  GVMYAHGVEN  RFSDWSMDRV  FGDLRRFVIA540
AQWQQFRALK  YEIESMRRKP  NLAGYVITEL  HDCHWESNGL  LDMRRNPRVF  HELFHIINTD600
TVIAPKWERA  SYWSGETVAL  ELCIAHGAGQ  PLEDCQLEIS  VCSETERLPL  PVIKAPDVFN660
LGRVEIPLPA  VDEPSLRRIS  FDLRAPGGKL  IAHNHHDIAI  HSKRTKPVHA  RELVWSPDED720
IRERFRALGY  NIARAFEEST  LIVSRTHNKA  IADHVRAGAK  LLLLPEEDMT  LYPFFPHWQA780
VRVQARAGTL  WSGDWASSFG  WLRRSGHFAR  FPSGPLLDET  MDRVLPDYVI  VNCNLLDFQA840
RVFAGLVVGW  IHKPVALGVE  RSYGRGRMVT  STLRLFRDQP  LADPTATLLT  DALVELAVES900
RAARLEEAVR  AAEAAA916

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