Seed protein information help

APIS family ID APIS080
Inhibited defense system
CLAN ID CLAN010
Seed protein property
Accession ID Gene name Protein length Molecular weight Isoelectric point Charge
ON602753_00020
gene_page: 103 11273.83 10.3987 5.0
Phage property
Phage Assembly id
Klebsiella phage VLCpiA3d ON602753
PMID/References
PDB structures ;
Pfam domains PF17574.5
Phrog phrog_2254
Host taxa d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Enterobacteriaceae;g__Klebsiella;
Gene Location Start: ;  End: ;  Strand: 
Description
Note This family does not have seed protein, but we infer its function is defending toxin-antitoxin (TA) because it belongs to the same clan as family APIS011 which has seed protein.

Predicted 3D structure by alphafold2 with pTM = 0.73 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

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

Hit Query start Query end Hit start Hit end TMscore(ali) TMscore(avg)
MGYP003595835577.pdb 8 96 3 89 0.7983 0.7126

Family information      Download help

Fam ID Seed protein Member count Model Alignment
APIS080 ON602753_00020 39 HMM model Member alignment

Host Taxa distribution

Length distribution

Length Distribution Bar chart

Homology to other families       download full data without filtering help

Clan ID: CLAN010

Hit APIS family E-Value Query Start Query End Hit Start Hit End Immune system Seed protein
APIS011 5.48E-32 9 86 26 103 toxin-antitoxin (TA) NP_041980.1
APIS084 8.32E-26 6 77 7 78 - MW001769_00023
APIS078 2.51E-23 9 74 5 70 - KX078568_00026

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_3300045988_000298|3300045988|Ga0495776_113816_26626_26937 92.857 2.15e-60 188 95% IMGVR PF17574 phrog_2254
IMGVR_UViG_3300045988_001943|3300045988|Ga0495776_046194_7165_7476 88.119 1.81e-58 183 98% IMGVR PF17574 phrog_2254
MGV-GENOME-0149923_11 92.157 3.76e-60 187 97% MGV PF17574 phrog_2254
MGV-GENOME-0189393_13 88.119 1.89e-58 183 97% MGV PF17574 phrog_2254
MGV-GENOME-0265429_14 93.069 4.12e-62 192 97% MGV PF17574 phrog_2254
MGV-GENOME-0266883_34 90.099 1.53e-59 186 97% MGV PF17574 phrog_2254
MGV-GENOME-0269628_21 94.175 7.61e-63 194 98% MGV PF17574 phrog_2254
MGV-GENOME-0271769_13 91.000 1.32e-60 188 96% MGV PF17574 phrog_2254
MGV-GENOME-0271873_37 92.157 6.42e-61 189 97% MGV PF17574 phrog_2254
MGV-GENOME-0271896_27 88.119 3.00e-58 182 97% MGV PF17574 phrog_2254
MGV-GENOME-0272093_12 92.857 2.24e-60 188 94% MGV PF17574 phrog_2254
MGV-GENOME-0272520_27 89.320 1.99e-59 185 98% MGV PF17574 phrog_2254
MGV-GENOME-0274788_15 91.176 2.37e-60 187 97% MGV PF17574 phrog_2254
MGV-GENOME-0275239_15 92.079 6.50e-60 187 97% MGV PF17574 phrog_2254
MGV-GENOME-0276411_33 89.109 6.74e-59 184 97% MGV PF17574 phrog_2254
MH059637_00020 70.370 9.81e-41 121 79% Pectobacterium phage Jarilo Pectobacterium INPHARED PF17574 phrog_2254
MK795385_00033 94.175 7.30e-63 194 99% Klebsiella phage IME304 Klebsiella INPHARED PF17574 phrog_2254
MT813141_00017 92.929 1.67e-60 188 96% Klebsiella phage NL_ZS_2 Klebsiella INPHARED PF17574 phrog_2254
MT966872_00022 90.000 5.23e-60 187 97% Klebsiella phage P510 Klebsiella INPHARED PF17574 phrog_2254
MW042791_00025 90.722 1.64e-58 183 94% Klebsiella phage 066023 Klebsiella INPHARED PF17574 phrog_2254
MW042800_00047 91.000 1.27e-60 188 97% Klebsiella phage 066037 Klebsiella INPHARED PF17574 phrog_2254
MW042812_00012 90.196 5.35e-60 187 98% Klebsiella phage 066134 Klebsiella INPHARED PF17574 phrog_2254
OM194189_00019 93.069 3.96e-62 192 98% Klebsiella phage Shaphc-9226R Klebsiella INPHARED PF17574 phrog_2254
ON602753_00020 100.000 1.08e-67 206 100% Klebsiella phage VLCpiA3d Klebsiella INPHARED PF17574 phrog_2254
ON602755_00024 91.000 8.58e-60 186 97% Klebsiella phage VLCpiA3c Klebsiella INPHARED PF17574 phrog_2254
ON880501_00029 92.079 1.19e-61 191 98% Klebsiella phage vB_KpnP1 Klebsiella INPHARED PF17574 phrog_2254
OP256047_00028 93.137 2.09e-54 172 99% Klebsiella phage BUCT-3589 Klebsiella INPHARED PF17574 phrog_2254
OQ579029_00019 92.000 9.70e-54 171 97% Klebsiella phage Saitama Klebsiella INPHARED PF17574 phrog_2254
OQ579030_00020 89.109 9.52e-52 166 98% Klebsiella phage Emom Klebsiella INPHARED PF17574 phrog_2254
OX335390_00021 87.129 2.67e-50 162 98% Klebsiella phage cp7 Klebsiella INPHARED PF17574 phrog_2254
OX335398_00022 88.119 6.15e-51 164 98% Klebsiella phage cp8 Klebsiella INPHARED PF17574 phrog_2254
uvig_225801_27 89.320 1.91e-59 185 99% GPD PF17574 phrog_2254
uvig_234063_32 88.119 2.88e-58 182 98% GPD PF17574 phrog_2254
uvig_241747_16 93.137 1.35e-61 191 98% GPD PF17574 phrog_2254
uvig_282596_29 98.058 1.69e-64 198 99% GPD PF17574 phrog_2254
uvig_320142_31 91.176 2.27e-60 187 98% GPD PF17574 phrog_2254
uvig_325023_26 92.079 6.24e-60 187 98% GPD PF17574 phrog_2254
uvig_328834_17 90.099 1.47e-59 186 98% GPD PF17574 phrog_2254
uvig_472708_11 92.157 3.60e-60 187 98% GPD PF17574 phrog_2254
APIS Contig Range
APIS080 -

Gene cluster comparison plot by clinker      Download html