Seed protein information help

APIS family ID APIS133
Inhibited defense system CRISPR-Cas evasion by DNA repair
CLAN ID CLAN056
Seed protein property
Accession ID Gene name Protein length Molecular weight Isoelectric point Charge
YP_008997728.1 gene_page: vcrx092 343 39173.88 4.8053 -11.5
Phage property
Phage Assembly id
Vibrio cholerae
PMID/References PMID:32556263
PDB structures ;
Pfam domains PF03837.19
Phrog phrog_12233,phrog_252,phrog_8375,phrog_10056
Host taxa d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Vibrionales;f__Vibrionaceae;g__Vibrio;
Gene Location Start: ;  End: ;  Strand: 
Description CRISPR–Cas evasion by repairing double-strand DNA breaks via recombination between short sequence repeats

Predicted 3D structure by alphafold2 with pTM = 0.57 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-Q32GM7-F1-model_v4 15 223 2 193 0.8259 0.5916

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

Hit Query start Query end Hit start Hit end TMscore(ali) TMscore(avg)
MGYP001022669891.pdb 20 211 1 187 0.9335 0.7162
MGYP001049722605.pdb 16 212 7 202 0.9236 0.7111
MGYP000396468630.pdb 30 219 1 173 0.9255 0.6945
MGYP001042576686.pdb 15 223 8 198 0.8818 0.6904
MGYP001571145685.pdb 6 203 1 170 0.9254 0.6878
MGYP001563290713.pdb 15 220 9 191 0.8884 0.6871
MGYP003491535395.pdb 16 218 10 194 0.8722 0.6823
MGYP000196605117.pdb 15 219 6 186 0.8824 0.6819
MGYP000461655890.pdb 15 191 1 176 0.9071 0.6808
MGYP001010422329.pdb 22 274 1 200 0.8652 0.6788

Family information      Download help

Fam ID Seed protein Member count Model Alignment
APIS133 YP_008997728.1 6 HMM model Member alignment

Host Taxa distribution

Length distribution

Length Distribution Bar chart

Homology to other families       help

Clan ID: CLAN056

APIS133 has no similar APIS family.