Seed protein information help

APIS family ID APIS127
Inhibited defense system
CLAN ID CLAN039
Seed protein property
Accession ID Gene name Protein length Molecular weight Isoelectric point Charge
IMGVR_UViG_3300006925_000049|3300006925|Ga0098050_100007221
gene_page: 557 62589.76 5.0667 -14.0
Phage property
Phage Assembly id
IMGVR_UViG_3300006925_000049
PMID/References
PDB structures ;
Pfam domains PF07728.19,PF07726.16,PF00004.34,PF08406.15,PF13173.11,PF13401.11
Phrog phrog_249
Host taxa ;;;;;;
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 APIS166 which has seed protein.

Predicted 3D structure by alphafold2 with pTM = 0.61 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-A0A0H3H502-F1-model_v4 206 549 1 281 0.9461 0.7103
AF-P33348-F1-model_v4 198 555 30 362 0.7274 0.5954
AF-K0FCV8-F1-model_v4 198 556 25 372 0.7039 0.5814
AF-K0EYL3-F1-model_v4 198 555 31 366 0.7028 0.577
AF-A0A0G2K3W1-F1-model_v4 135 556 1 454 0.5751 0.5303
AF-A0A132YZV7-F1-model_v4 233 551 1 389 0.6251 0.4175
AF-A0A3P7PBI1-F1-model_v4 37 556 423 877 0.5213 0.4164
AF-A0A0N4UFG6-F1-model_v4 36 556 231 739 0.474 0.3938
AF-Q9H799-F1-model_v4 190 556 60 908 0.5214 0.3644
AF-Q9HC84-F17-model_v4 37 556 593 1313 0.5193 0.3628

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

Hit Query start Query end Hit start Hit end TMscore(ali) TMscore(avg)
MGYP003686209621.pdb 186 543 1 345 0.9447 0.763
MGYP000605860649.pdb 217 549 1 319 0.9516 0.7463
MGYP001014096815.pdb 228 552 1 323 0.9452 0.7445
MGYP001189287878.pdb 220 549 1 324 0.9337 0.7408
MGYP003663999631.pdb 215 553 1 311 0.9524 0.7403
MGYP001269374496.pdb 216 553 5 332 0.93 0.7401
MGYP001588267429.pdb 134 550 4 378 0.884 0.7379
MGYP001352132134.pdb 215 551 5 318 0.9383 0.7353
MGYP000612083078.pdb 214 555 3 323 0.9305 0.7329
MGYP003706907671.pdb 215 543 10 328 0.9244 0.7325

Family information      Download help

Fam ID Seed protein Member count Model Alignment
APIS127 IMGVR_UViG_3300006925_000049|3300006925|Ga0098050_100007221 7 HMM model Member alignment

Host Taxa distribution

Length distribution

Length Distribution Bar chart

Homology to other families       help

Clan ID: CLAN039

APIS127 has no similar APIS family.