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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 APIS172
Inhibited defense system
CLAN ID CLAN038
Seed protein property
Accession ID Gene name Protein length Molecular weight Isoelectric point Charge
IMGVR_UViG_3300033489_000038|3300033489|Ga0299912_1000048148
gene_page: 292 34238.01 5.6510 -5.0
Phage property
Phage Assembly id
IMGVR_UViG_3300033489_000038
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 = 0.67 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-A0A0H3GNV3-F1-model_v4 1 187 1 201 0.7875 0.664
AF-K7K9X8-F1-model_v4 7 193 21 234 0.7492 0.5893
AF-I1KRY7-F1-model_v4 1 193 65 284 0.7773 0.5693
AF-Q5XVK9-F1-model_v4 6 193 57 273 0.7394 0.5546
AF-K7M7T4-F1-model_v4 7 193 77 290 0.7444 0.5375
AF-Q8GW93-F1-model_v4 1 193 41 324 0.6019 0.5357
AF-A0A1D6E7X0-F1-model_v4 1 193 142 362 0.7661 0.5147
AF-C0HGN0-F1-model_v4 2 193 144 360 0.7742 0.5126
AF-A0A0N7KPH9-F1-model_v4 2 193 158 374 0.7733 0.5048
AF-Q8SXR5-F1-model_v4 1 187 244 446 0.7401 0.4436

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

Hit Query start Query end Hit start Hit end TMscore(ali) TMscore(avg)
MGYP000308052368.pdb 2 202 1 201 0.9548 0.7968
MGYP001275816148.pdb 1 194 2 195 0.9624 0.7952
MGYP001582263125.pdb 1 189 1 189 0.9615 0.7886
MGYP000267747872.pdb 1 185 1 183 0.9712 0.7871
MGYP000007684401.pdb 6 204 1 200 0.9369 0.784
MGYP000122276344.pdb 5 192 1 190 0.9534 0.7831
MGYP003655438028.pdb 1 190 1 192 0.9487 0.7827
MGYP001612759232.pdb 6 192 1 187 0.9708 0.7741
MGYP000205446686.pdb 1 189 7 194 0.9535 0.7741
MGYP001617366467.pdb 2 192 3 190 0.9414 0.773

Family information      Download help

Fam ID Seed protein Member count Model Alignment
APIS172 IMGVR_UViG_3300033489_000038|3300033489|Ga0299912_1000048148 3 HMM model Member alignment

Host Taxa distribution

Length distribution

Homology to other families       help

Clan ID: CLAN038

APIS172 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_3300033489_000038|3300033489|Ga0299912_1000048148 100.000 1.079E-199 610 1.000% IMGVR PF09588 phrog_
IMGVR_UViG_3300033094_000658|3300033094|Ga0364582_116626 53.800 4.263E-91 297 0.993% IMGVR PF09588 phrog_
IMGVR_UViG_3300011336_000679|3300011336|Ga0153703_106225 53.800 4.263E-91 297 0.993% IMGVR PF09588 phrog_