Seed protein information help

APIS family ID APIS140
Inhibited defense system
CLAN ID CLAN053
Seed protein property
Accession ID Gene name Protein length Molecular weight Isoelectric point Charge
MW250275_00006
gene_page: 93 9667.85 3.7299 -12.0
Phage property
Phage Assembly id
MW250275
PMID/References
PDB structures ;
Pfam domains
Phrog
Host taxa d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Enterobacteriaceae;g__Kosakonia;s__unclassified Kosakonia species
Gene Location Start: 2223;  End: 2504;  Strand: +
Description
Note This family does not have seed protein, but we infer its function is defending AVAST (Antiviral STAND) because it belongs to the same clan as family APIS129,APIS193 which has seed protein.

Seed genomic context      Download table help

Genome accession Start End Strand Protein ID Length Molecular weight Charge Isoelectric point Function Phrog PFAM
MW250275 1 393 + MW250275_00001 130 14659.78 -6.5 4.3216 SAM-dependent methyltransferase phrog_2226
MW250275 532 1056 + MW250275_00002 174 19280.99 4.5 8.8900 hypothetical protein phrog_1448
MW250275 1119 1391 + MW250275_00003 90 9619.96 -7.0 3.8431 hypothetical protein
MW250275 1464 1745 + MW250275_00004 93 10232.26 -12.0 4.0422 hypothetical protein
MW250275 1819 2157 + MW250275_00005 112 11704.96 -17.0 3.5827 hypothetical protein
MW250275 2223 2504 + MW250275_00006 93 9667.85 -12.0 3.7299 hypothetical protein
MW250275 2543 2773 + MW250275_00007 76 8563.50 -10.0 3.9544 hypothetical protein
MW250275 2842 3126 + MW250275_00008 94 9734.94 -9.0 3.8209 hypothetical protein
MW250275 3129 3467 + MW250275_00009 112 12632.38 -9.0 4.2580 hypothetical protein
MW250275 3470 3784 + MW250275_00010 104 11126.98 -1.0 6.0522 hypothetical protein
MW250275 3793 4044 + MW250275_00011 83 9299.28 -10.0 4.0742 hypothetical protein

Seed genomic context- JBrowse     

Predicted 3D structure by alphafold2 with pTM = 0.59 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

No homologs found in AlphaFold database

No homologs found in esmfold database

Family information      Download help

Fam ID Seed protein Member count Model Alignment
APIS140 MW250275_00006 5 HMM model Member alignment

Host Taxa distribution

Length distribution

Length Distribution Bar chart

Homology to other families       help

Clan ID: CLAN053

APIS140 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
MW250275_00006 100.000 5.854E-56 184 1.000% Kosakonia virus Kc261 Kosakonia INPHARED
MN850617_00032 91.300 2.604E-54 180 1.000% Escherichia phage forsur Escherichia INPHARED
MN850608_00005 70.400 6.189E-35 124 0.925% Escherichia phage megetsur Escherichia INPHARED
IMGVR_UViG_2751185941_000001|2751185941|2753970793 71.000 2.394E-35 125 0.925% Enterobacter bugandensis IMGVR
MN850592_00039 73.700 2.847E-37 131 0.925% Escherichia phage aldrigsur Escherichia INPHARED