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Seed proteins  | Seed protein 3D structures  |  Structural homologs  |  Family infomation  | Homology to other families  | Family members, sources, and their hosts  

Seed protein information help

APIS family ID APIS194
Inhibited defense system
CLAN ID CLAN003
Seed protein property
Accession ID Gene name Protein length Molecular weight Isoelectric point Charge
IMGVR_UViG_2802429331_000011|2802429331|2805043655
gene_page: 181 20294.38 3.8290 -24.5
Phage property
Phage Assembly id
IMGVR_UViG_2802429331_000011
PMID/References
PDB structures ;
Pfam domains PF07275.16
Phrog
Host taxa d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Mycobacteriaceae;g__Nocardia;s__Nocardia terpenica
Gene Location Start: ;  End: ;  Strand: 
Description
Note This family does not have seed protein, but we infer its function is defending restriction-modification (RM) because it belongs to the same clan as family APIS003,ardu which has seed protein.

Predicted 3D structure by alphafold2 with pTM = 0.83 Download help

pTM is for the estimate of the TM-score, which is obtained from a pairwise error prediction. The higher pTM score indicates better model quality.

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
90 < plddt <=100 ;
70 < plddt <= 90 ;
50 < plddt <= 70 ;
0 <= plddt <= 50 ;      Download help

Structural homologs

Structure homologs against by afdb (html) ; download full result table

Hit Query start Query end Hit start Hit end TMscore(ali) TMscore(avg)
AF-A0A132ZEK5-F1-model_v4 1 181 2 167 0.7907 0.7264
AF-A0A132P918-F1-model_v4 1 181 2 166 0.7861 0.7192
AF-A0A0H3GZQ3-F1-model_v4 1 180 6 168 0.7645 0.7062

Structure homologs against by esmdb (html) ; download full result table

Hit Query start Query end Hit start Hit end TMscore(ali) TMscore(avg)
MGYP000295163498.pdb 1 181 3 177 0.8683 0.8314
MGYP001086203328.pdb 1 181 10 191 0.8703 0.8231
MGYP001054769952.pdb 1 181 2 168 0.8607 0.8081
MGYP000878635968.pdb 1 181 6 180 0.837 0.808
MGYP000918656566.pdb 1 181 5 177 0.8416 0.8057
MGYP000091256924.pdb 1 181 1 175 0.8446 0.8035
MGYP001001204165.pdb 1 181 7 178 0.8352 0.803
MGYP003298723900.pdb 1 180 3 170 0.8524 0.8006
MGYP000968187613.pdb 1 181 6 178 0.8309 0.7964
MGYP003683265247.pdb 1 181 3 172 0.8427 0.7959

Family information      Download help

Fam ID Seed protein Member count Model Alignment
APIS194 IMGVR_UViG_2802429331_000011|2802429331|2805043655 3 HMM model Member alignment

Host Taxa distribution

Length distribution

Homology to other families       help

Clan ID: CLAN003

APIS194 has no similar APIS family.

Family members, sources, and their hosts        help

Results of representative protein blast against members.
Member pident evalue bitscore qcovs phage host SourceDB Pfam Phrog
IMGVR_UViG_2802429331_000011|2802429331|2805043655 100.000 2.351E-120 375 1.000% Nocardia terpenica IMGVR PF07275 phrog_
IMGVR_UViG_3300045988_171915|3300045988|Ga0495776_049391_15420_15986 42.100 9.582E-33 123 0.884% IMGVR PF07275 phrog_
MGV-GENOME-0181932_19 42.100 9.582E-33 123 0.884% Desulfovibrio MGV PF07275 phrog_