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Seed proteins  | Seed genomic context  | 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 APIS001
Inhibited defense system pyrimidine cyclase system for antiphage resistance (Pycsar)
CLAN ID CLAN030
Seed protein property
Accession ID Gene name Protein length Molecular weight Isoelectric point Charge
YP_009840594.1 gene_page: Apyc1 256 29051.7 4.8545 -9.5
Phage property
Phage Assembly id
Bsp38 of Bacillus subtilis GCF_003367035.1
PMID/References PMID:35395152
PDB structures 7T28,Bsp38;7U2R,Paenibacillus J14;7U2S,Paenibacillus xerothermodurans;
Pfam domains PF00753.30
Phrog phrog_392
Host taxa d__Bacteria;p__Firmicutes;c__Bacilli;o__Bacillales;f__Bacillaceae;g__Bacillus;s__Bacillus subtilis
Gene Location Start: 92525;  End: 93295;  Strand: +
Description SBSphiJ Apyc1 efficiently hydrolyses a wide range of cyclic mononucleotides; 273 Acb1 and 107 Apyc1 phage proteins were identified.

Seed genomic context      Download table help

Genome accession Start End Strand Protein ID Length Molecular weight Charge Isoelectric point Function Phrog PFAM
NC_048726.1 90711 90842 + YP_009840589.1 43 5432.17 1.5 7.3202 hypothetical protein
NC_048726.1 90832 91815 + YP_009840590.1 327 37645.45 -14.5 4.4760 ribonucleotide reductase class Ia beta subunit phrog_10582 ; phrog_24856 ; phrog_7909 ; phrog_86 ; phrog_9465 ; phrog_9530 PF00268.24
NC_048726.1 91815 92051 + YP_009840591.1 78 8693.89 -7.5 4.0742 putative thioredoxin
NC_048726.1 92152 92349 + YP_009840592.1 65 7822.74 -4.5 4.5778 hypothetical protein phrog_24464
NC_048726.1 92346 92525 + YP_009840593.1 59 7041.92 -14.5 3.3286 hypothetical protein
NC_048726.1 92525 93295 + YP_009840594.1 256 29051.70 -9.5 4.8545 metal-dependent hydrolase phrog_392 PF00753.30
NC_048726.1 93311 93502 + YP_009840595.1 63 6927.92 -3.5 4.4895 hypothetical protein phrog_11210
NC_048726.1 93502 93657 + YP_009840596.1 51 5795.81 -4.5 4.2507 hypothetical protein phrog_28167 ; phrog_19268 ; phrog_21011
NC_048726.1 93654 93848 + YP_009840597.1 64 7430.41 -1.5 5.6149 hypothetical protein
NC_048726.1 93845 94063 + YP_009840598.1 72 8315.41 -8.0 4.0078 acetyltransferase phrog_5504
NC_048726.1 94066 94446 + YP_009840599.1 126 14832.61 -12.0 4.1674 hypothetical protein phrog_17088

Seed genomic context- JBrowse     

PDB structure: 7T28 ; Download help

Full Sequence      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-A0A0H3GHL8-F1-model_v4 5 238 1 238 0.8284 0.7878
AF-A0A133CTF0-F1-model_v4 1 238 1 244 0.8176 0.7862
AF-P9WGC1-F1-model_v4 1 238 18 267 0.8368 0.7674
AF-Q58769-F1-model_v4 1 238 3 253 0.816 0.7554
AF-P50474-F1-model_v4 1 238 27 276 0.8371 0.7551
AF-P16692-F1-model_v4 1 238 3 249 0.7862 0.7487
AF-A0A0H3GM29-F1-model_v4 1 238 3 249 0.7863 0.7487
AF-Q329H1-F1-model_v4 1 238 3 249 0.7848 0.747
AF-O74545-F1-model_v4 1 238 6 297 0.8418 0.7433
AF-K0EUK8-F1-model_v4 22 238 1 230 0.7727 0.742

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

Hit Query start Query end Hit start Hit end TMscore(ali) TMscore(avg)
MGYP001101967902.pdb 1 238 5 254 0.9231 0.8778
MGYP002654867125.pdb 1 238 3 253 0.9006 0.8575
MGYP003952926961.pdb 1 238 2 251 0.8769 0.8337
MGYP001424664394.pdb 1 238 1 240 0.857 0.8335
MGYP000754846076.pdb 1 238 3 243 0.8585 0.8314
MGYP000856702051.pdb 1 238 3 265 0.8913 0.8294
MGYP001478949968.pdb 1 238 1 258 0.8806 0.8291
MGYP001450167839.pdb 1 238 1 245 0.8676 0.8291
MGYP000956383480.pdb 1 238 1 240 0.853 0.8289
MGYP001465423269.pdb 1 238 1 251 0.8711 0.8287

Family information      Download help

Fam ID Seed protein Member count Model Alignment
APIS001 YP_009840594.1 26 HMM model Member alignment

Host Taxa distribution

Length distribution

Homology to other families       download full data without filtering help

Clan ID: CLAN030

Hit APIS family E-Value Query Start Query End Hit Start Hit End Immune system Seed protein
APIS076 1.49E-66 17 271 3 259 IMGVR_UViG_3300044693_000096|3300044693|Ga0466961_0000159_42271_43065
APIS058 3.13E-56 18 271 14 268 IMGVR_UViG_3300022562_000702|3300022562|Ga0247387_1000200120
APIS062 2.02E-54 20 271 1 263 IMGVR_UViG_3300028374_000006|3300028374|Ga0306906_100003345
APIS073 6.60E-53 19 271 22 285 IMGVR_UViG_3300042197_004918|3300042197|Ga0451494_0000046_37885_38742
APIS054 1.35E-43 19 270 2 261 IMGVR_UViG_3300014204_000482|3300014204|Ga0172381_1000105623
APIS041 9.01E-43 19 271 1 249 IMGVR_UViG_2832702071_000001|2832702071|2832704097
APIS066 2.83E-40 20 271 1 293 IMGVR_UViG_3300035396_000446|3300035396|Ga0393109_006065_59543_60412
APIS060 2.90E-36 20 271 1 259 IMGVR_UViG_3300024258_000005|3300024258|Ga0233440_1000037199
APIS064 1.21E-35 20 271 1 258 IMGVR_UViG_3300033145_003233|3300033145|Ga0366840_1000004654
APIS044 7.63E-31 22 260 2 233 HM144387_00160

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_2974673286_000001|2974673286|2974673417 100.000 0.0 528 99% IMGVR PF00753 phrog_392
IMGVR_UViG_3300027628_000019|3300027628|Ga0209463_100018292 50.973 3.06e-78 245 98% IMGVR PF12706 phrog_392
IMGVR_UViG_3300049046_000017|3300049046|Ga0498743_000341_2770_3534 51.362 6.47e-77 241 98% IMGVR PF12706 phrog_392
JN638751_00385 41.494 7.02e-41 149 90% Bacillus phage G Bacillus INPHARED PF12706 phrog_392
KF669652_00121 87.938 1.32e-164 464 99% Bacillus phage Grass Bacillus INPHARED PF00753 phrog_392
KM236245_00126 50.000 2.13e-78 245 97% Bacillus phage Mater Bacillus INPHARED PF12706 phrog_392
KY368640_00118 78.846 2.48e-144 412 99% Bacillus phage vB_BsuM-Goe3 Bacillus INPHARED PF00753 phrog_392
LT960608_00153 87.549 4.12e-163 460 99% Bacillus phage SBSphiJ Bacillus INPHARED PF00753 phrog_392
MH606185_00128 100.000 0.0 528 99% Bacillus phage BSP38 Bacillus INPHARED PF00753 phrog_392
MT151604_00140 54.365 1.09e-79 248 98% Bacillus phage P59 Bacillus INPHARED PF00753 phrog_392
MW419085_00133 66.403 4.86e-108 320 98% Bacillus phage 000TH009 Bacillus INPHARED PF00753 phrog_392
MW419086_00121 65.613 2.56e-107 318 98% Bacillus phage 015DV002 Bacillus INPHARED PF00753 phrog_392
MW419087_00140 66.008 6.12e-108 320 98% Bacillus phage 015DV004 Bacillus INPHARED PF12706 phrog_392
MW749002_00188 65.217 2.42e-106 316 98% Bacillus phage vB_BspH_Mawwa Bacillus INPHARED PF00753 phrog_392
MW749007_00191 65.217 2.60e-107 318 98% Bacillus phage vB_BspH_TimeGriffin Bacillus INPHARED PF00753 phrog_392
MZ501263_00147 84.825 1.05e-157 446 99% Bacillus phage 043JT007 Bacillus INPHARED PF00753 phrog_392
MZ501265_00143 84.825 1.21e-157 446 99% Bacillus phage 278BB001 Bacillus INPHARED PF00753 phrog_392
OK349510_00018 77.821 2.65e-142 407 99% Bacillus phage BM-P1 Bacillus INPHARED PF00753 phrog_392
OM728301_00121 78.210 2.35e-142 407 99% Bacillus phage vB_BsuM-Goe20 Bacillus INPHARED PF00753 phrog_392
OM728302_00121 78.462 1.60e-143 410 99% Bacillus phage vB_BsuM-Goe24 Bacillus INPHARED PF00753 phrog_392
OM728303_00122 79.377 1.05e-145 416 99% Bacillus phage vB_BsuM-Goe25 Bacillus INPHARED PF00753 phrog_392
OM982669_00151 86.770 2.11e-159 451 99% Bacillus phage SBSphiJ2 Bacillus INPHARED PF00753 phrog_392
OM982671_00150 85.992 7.13e-158 447 99% Bacillus phage SBSphiJ4 Bacillus INPHARED PF00753 phrog_392
OM982673_00147 86.770 9.37e-160 451 99% Bacillus phage SBSphiJ6 Bacillus INPHARED PF00753 phrog_392
OM982674_00148 87.160 4.16e-163 460 99% Bacillus phage SBSphiJ7 Bacillus INPHARED PF00753 phrog_392
YP_009840594.1 100.000 0.0 528 100% Bsp38 of Bacillus subtilis Bacillus subtilis NCBI PF00753 phrog_392
APIS Contig Range
APIS001 NC_048726.1 90711 - 94446

Gene cluster comparison plot by clinker      Download html