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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 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

Homology to other families       help

Clan ID: CLAN039

APIS127 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_3300006925_000049|3300006925|Ga0098050_100007221 100.000 0.000E+00 1118 1.000% IMGVR PF07728 PF07726 PF00004 PF08406 PF13173 PF13401 phrog_249
IMGVR_UViG_3300021197_001359|3300021197|Ga0219031_119427 88.300 0.000E+00 1017 0.993% IMGVR PF07728 PF00004 PF07726 PF08406 PF13401 PF13173 phrog_249
IMGVR_UViG_3300046170_000208|3300046170|Ga0494229_03019_51819_53489 92.500 0.000E+00 1078 0.998% IMGVR PF07728 PF07726 PF00004 PF08406 PF13173 PF13401 phrog_249
IMGVR_UViG_3300006735_000511|3300006735|Ga0098038_100056511 90.500 0.000E+00 1052 0.998% IMGVR PF07728 PF07726 PF00004 PF08406 PF13173 PF13401 phrog_249
IMGVR_UViG_3300021958_000133|3300021958|Ga0222718_1000036265 91.600 0.000E+00 1065 0.998% IMGVR PF07728 PF00004 PF07726 PF08406 PF13173 PF13401 phrog_249
IMGVR_UViG_3300025102_000894|3300025102|Ga0208666_10010462 90.600 0.000E+00 1053 0.998% IMGVR PF07728 PF07726 PF00004 PF08406 PF13173 PF13401 phrog_249
IMGVR_UViG_3300025108_000288|3300025108|Ga0208793_10004458 95.600 0.000E+00 1119 0.998% IMGVR PF07728 PF07726 PF00004 PF08406 PF13173 PF13401 phrog_249