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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 APIS123
Inhibited defense system
CLAN ID CLAN038
Seed protein property
Accession ID Gene name Protein length Molecular weight Isoelectric point Charge
IMGVR_UViG_3300037330_000139|3300037330|Ga0400266_0002527_1772_2668
gene_page: 298 34480.78 4.4297 -16.5
Phage property
Phage Assembly id
IMGVR_UViG_3300037330_000139
PMID/References
PDB structures ;
Pfam domains PF09588.15
Phrog
Host taxa ;;;;;;
Gene Location Start: ;  End: ;  Strand: 
Description
Note This family does not have seed protein, but we infer its function is defending CRISPR-Cas evasion by DNA repair because it belongs to the same clan as family APIS185 which has seed protein.

Predicted 3D structure by alphafold2 with pTM = 0.74 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-K7K9X8-F1-model_v4 6 195 21 233 0.7553 0.5923
AF-I1KRY7-F1-model_v4 1 195 66 283 0.7832 0.5662
AF-Q5XVK9-F1-model_v4 7 195 58 272 0.7528 0.5551
AF-K7M7T4-F1-model_v4 6 195 77 289 0.7518 0.5389
AF-Q8GW93-F1-model_v4 1 195 108 323 0.7656 0.5296
AF-C0HGN0-F1-model_v4 1 195 142 359 0.7781 0.5125
AF-A0A1D6E7X0-F1-model_v4 1 195 145 361 0.78 0.5105
AF-A0A0N7KPH9-F1-model_v4 1 195 156 373 0.7782 0.5054
AF-Q8SXR5-F1-model_v4 1 284 248 455 0.5461 0.448

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

Hit Query start Query end Hit start Hit end TMscore(ali) TMscore(avg)
MGYP001582263125.pdb 1 192 2 189 0.9537 0.7758
MGYP000122276344.pdb 5 195 1 190 0.9465 0.7708
MGYP001275816148.pdb 2 196 3 194 0.9356 0.7703
MGYP000007684401.pdb 5 202 1 196 0.9284 0.768
MGYP001612759232.pdb 6 195 1 187 0.9532 0.7659
MGYP000308052368.pdb 1 201 1 198 0.9197 0.7648
MGYP001327248204.pdb 3 255 3 251 0.8471 0.7644
MGYP001617366467.pdb 1 195 2 190 0.9377 0.7634
MGYP000267747872.pdb 2 188 2 183 0.9451 0.7593
MGYP001264630531.pdb 6 185 1 178 0.9546 0.7589

Family information      Download help

Fam ID Seed protein Member count Model Alignment
APIS123 IMGVR_UViG_3300037330_000139|3300037330|Ga0400266_0002527_1772_2668 3 HMM model Member alignment

Host Taxa distribution

Length distribution

Homology to other families       help

Clan ID: CLAN038

APIS123 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_3300037330_000139|3300037330|Ga0400266_0002527_1772_2668 100.000 1.017E-202 619 1.000% IMGVR PF09588 phrog_
IMGVR_UViG_3300040801_003929|3300040801|Ga0450804_3940813_464_1342 44.500 4.257E-68 231 0.963% IMGVR PF09588 phrog_
IMGVR_UViG_3300029156_000015|3300029156|Ga0168038_1000166 41.400 4.967E-61 210 0.966% IMGVR PF09588 phrog_