Detailed information
Bioinformatically predicted
Overview
| Name | ssb | Type | Machinery gene |
| Locus tag | ABVT38_RS06000 | Genome accession | NZ_CP159759 |
| Coordinates | 1221793..1222218 (-) | Length | 141 a.a. |
| NCBI ID | WP_350303037.1 | Uniprot ID | - |
| Organism | Pediococcus acidilactici strain PA_ZFRA1 | ||
| Function | ssDNA binding (predicted from homology) DNA processing |
||
Related MGE
Note: This gene co-localizes with putative mobile genetic elements (MGEs) in the genome predicted by VRprofile2, as detailed below.
Gene-MGE association summary
| MGE type | MGE coordinates | Gene coordinates | Relative position | Distance (bp) |
|---|---|---|---|---|
| Prophage | 1193761..1231517 | 1221793..1222218 | within | 0 |
Gene organization within MGE regions
Location: 1193761..1231517
| Locus tag | Gene name | Coordinates (strand) | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| ABVT38_RS05795 (ABVT38_05795) | - | 1193761..1194885 (-) | 1125 | WP_350303022.1 | peptidoglycan recognition family protein | - |
| ABVT38_RS05800 (ABVT38_05800) | - | 1194869..1195108 (-) | 240 | WP_159206131.1 | phage holin | - |
| ABVT38_RS05805 (ABVT38_05805) | - | 1195108..1195398 (-) | 291 | WP_255318471.1 | hypothetical protein | - |
| ABVT38_RS05810 (ABVT38_05810) | - | 1195434..1195565 (-) | 132 | WP_176582109.1 | XkdX family protein | - |
| ABVT38_RS05815 (ABVT38_05815) | - | 1195565..1195882 (-) | 318 | WP_350303023.1 | DUF2977 domain-containing protein | - |
| ABVT38_RS05820 (ABVT38_05820) | - | 1195884..1196645 (-) | 762 | WP_350303024.1 | hypothetical protein | - |
| ABVT38_RS05825 (ABVT38_05825) | - | 1196664..1198508 (-) | 1845 | WP_176582112.1 | phage baseplate upper protein | - |
| ABVT38_RS05830 (ABVT38_05830) | - | 1198512..1198958 (-) | 447 | WP_176582113.1 | hypothetical protein | - |
| ABVT38_RS05835 (ABVT38_05835) | - | 1198942..1201902 (-) | 2961 | WP_350303025.1 | phage tail protein | - |
| ABVT38_RS05840 (ABVT38_05840) | - | 1201902..1202120 (-) | 219 | WP_350303026.1 | hypothetical protein | - |
| ABVT38_RS05845 (ABVT38_05845) | - | 1202157..1202666 (-) | 510 | WP_350303027.1 | hypothetical protein | - |
| ABVT38_RS05850 (ABVT38_05850) | - | 1202666..1205686 (-) | 3021 | WP_176582116.1 | phage tail tape measure protein | - |
| ABVT38_RS05855 (ABVT38_05855) | - | 1205670..1205948 (-) | 279 | WP_237028531.1 | hypothetical protein | - |
| ABVT38_RS05860 (ABVT38_05860) | - | 1206095..1206436 (-) | 342 | WP_176582117.1 | tail assembly chaperone | - |
| ABVT38_RS05865 (ABVT38_05865) | - | 1206509..1207165 (-) | 657 | WP_350303028.1 | phage major tail protein, TP901-1 family | - |
| ABVT38_RS05870 (ABVT38_05870) | - | 1207177..1207560 (-) | 384 | WP_350303029.1 | hypothetical protein | - |
| ABVT38_RS05875 (ABVT38_05875) | - | 1207585..1207926 (-) | 342 | WP_347921101.1 | HK97-gp10 family putative phage morphogenesis protein | - |
| ABVT38_RS05880 (ABVT38_05880) | - | 1207919..1208236 (-) | 318 | WP_350303030.1 | hypothetical protein | - |
| ABVT38_RS05885 (ABVT38_05885) | - | 1208241..1208606 (-) | 366 | WP_176582122.1 | phage head-tail connector protein | - |
| ABVT38_RS05890 (ABVT38_05890) | - | 1208617..1208883 (-) | 267 | WP_176582304.1 | Ig-like domain-containing protein | - |
| ABVT38_RS05895 (ABVT38_05895) | - | 1208901..1209719 (-) | 819 | WP_176582123.1 | N4-gp56 family major capsid protein | - |
| ABVT38_RS05900 (ABVT38_05900) | - | 1209719..1210435 (-) | 717 | WP_058121207.1 | DUF4355 domain-containing protein | - |
| ABVT38_RS05905 (ABVT38_05905) | - | 1210538..1211521 (-) | 984 | WP_176582124.1 | minor capsid protein | - |
| ABVT38_RS05910 (ABVT38_05910) | - | 1211490..1212824 (-) | 1335 | WP_244138848.1 | phage portal protein | - |
| ABVT38_RS05915 (ABVT38_05915) | - | 1212906..1214252 (-) | 1347 | WP_176582125.1 | PBSX family phage terminase large subunit | - |
| ABVT38_RS05920 (ABVT38_05920) | - | 1214245..1214736 (-) | 492 | WP_176582126.1 | terminase small subunit | - |
| ABVT38_RS05925 (ABVT38_05925) | - | 1214808..1215281 (+) | 474 | WP_176582127.1 | hypothetical protein | - |
| ABVT38_RS05930 (ABVT38_05930) | - | 1215353..1215799 (-) | 447 | WP_176582128.1 | hypothetical protein | - |
| ABVT38_RS05935 (ABVT38_05935) | - | 1216032..1216493 (-) | 462 | WP_176582129.1 | ArpU family phage packaging/lysis transcriptional regulator | - |
| ABVT38_RS05940 (ABVT38_05940) | - | 1216632..1216796 (-) | 165 | WP_176582130.1 | hypothetical protein | - |
| ABVT38_RS05945 (ABVT38_05945) | - | 1216814..1216996 (-) | 183 | WP_176582131.1 | hypothetical protein | - |
| ABVT38_RS05950 (ABVT38_05950) | - | 1216996..1217229 (-) | 234 | WP_176582132.1 | hypothetical protein | - |
| ABVT38_RS05955 (ABVT38_05955) | - | 1217229..1217444 (-) | 216 | WP_176582133.1 | hypothetical protein | - |
| ABVT38_RS05960 (ABVT38_05960) | - | 1217447..1217740 (-) | 294 | WP_075139796.1 | hypothetical protein | - |
| ABVT38_RS05965 (ABVT38_05965) | - | 1217906..1218277 (-) | 372 | WP_172756684.1 | N-acetylmuramoyl-L-alanine amidase | - |
| ABVT38_RS05970 (ABVT38_05970) | - | 1218264..1218413 (-) | 150 | WP_350303031.1 | hypothetical protein | - |
| ABVT38_RS05975 (ABVT38_05975) | - | 1218410..1218811 (-) | 402 | WP_350303032.1 | RusA family crossover junction endodeoxyribonuclease | - |
| ABVT38_RS05980 (ABVT38_05980) | - | 1218804..1219424 (-) | 621 | WP_350303033.1 | RNA polymerase subunit sigma-70 | - |
| ABVT38_RS05985 (ABVT38_05985) | - | 1219542..1220357 (-) | 816 | WP_354341639.1 | ATP-binding protein | - |
| ABVT38_RS05990 (ABVT38_05990) | - | 1220338..1221102 (-) | 765 | WP_350303035.1 | conserved phage C-terminal domain-containing protein | - |
| ABVT38_RS05995 (ABVT38_05995) | - | 1221080..1221781 (-) | 702 | WP_350303036.1 | putative HNHc nuclease | - |
| ABVT38_RS06000 (ABVT38_06000) | ssb | 1221793..1222218 (-) | 426 | WP_350303037.1 | single-stranded DNA-binding protein | Machinery gene |
| ABVT38_RS06005 (ABVT38_06005) | - | 1222211..1222417 (-) | 207 | WP_350303038.1 | hypothetical protein | - |
| ABVT38_RS06010 (ABVT38_06010) | - | 1222410..1223135 (-) | 726 | WP_350303039.1 | ERF family protein | - |
| ABVT38_RS06015 (ABVT38_06015) | - | 1223136..1223591 (-) | 456 | WP_354341642.1 | chromosome segregation protein SMC | - |
| ABVT38_RS06020 (ABVT38_06020) | - | 1223811..1224092 (+) | 282 | WP_350303041.1 | hypothetical protein | - |
| ABVT38_RS06025 (ABVT38_06025) | - | 1224089..1224310 (-) | 222 | WP_350303042.1 | hypothetical protein | - |
| ABVT38_RS06030 (ABVT38_06030) | - | 1224410..1224739 (-) | 330 | WP_176582140.1 | DUF771 domain-containing protein | - |
| ABVT38_RS06035 (ABVT38_06035) | - | 1224753..1225478 (-) | 726 | WP_176582141.1 | Rha family transcriptional regulator | - |
| ABVT38_RS06040 (ABVT38_06040) | - | 1225539..1225754 (+) | 216 | WP_058121230.1 | hypothetical protein | - |
| ABVT38_RS06045 (ABVT38_06045) | - | 1225775..1226179 (-) | 405 | WP_058121231.1 | hypothetical protein | - |
| ABVT38_RS06050 (ABVT38_06050) | - | 1226464..1226679 (-) | 216 | WP_058121232.1 | hypothetical protein | - |
| ABVT38_RS06055 (ABVT38_06055) | - | 1226953..1227315 (+) | 363 | WP_176582142.1 | helix-turn-helix transcriptional regulator | - |
| ABVT38_RS06060 (ABVT38_06060) | - | 1227331..1227747 (+) | 417 | WP_176582143.1 | ImmA/IrrE family metallo-endopeptidase | - |
| ABVT38_RS06065 (ABVT38_06065) | - | 1227765..1228088 (+) | 324 | WP_058121233.1 | hypothetical protein | - |
| ABVT38_RS06070 (ABVT38_06070) | - | 1228150..1228683 (+) | 534 | WP_176582144.1 | Ltp family lipoprotein | - |
| ABVT38_RS06075 (ABVT38_06075) | - | 1228719..1229117 (+) | 399 | WP_155569876.1 | hypothetical protein | - |
| ABVT38_RS06080 (ABVT38_06080) | - | 1229185..1229805 (+) | 621 | WP_058121236.1 | hypothetical protein | - |
| ABVT38_RS06085 (ABVT38_06085) | - | 1229980..1230177 (+) | 198 | WP_024863101.1 | hypothetical protein | - |
| ABVT38_RS06090 (ABVT38_06090) | - | 1230402..1231517 (+) | 1116 | WP_350303043.1 | tyrosine-type recombinase/integrase | - |
Sequence
Protein
Download Length: 141 a.a. Molecular weight: 15607.30 Da Isoelectric Point: 6.4678
>NTDB_id=1015687 ABVT38_RS06000 WP_350303037.1 1221793..1222218(-) (ssb) [Pediococcus acidilactici strain PA_ZFRA1]
MINRTVLIGRLTKDVELRHTAKGDAVASFTVAVNRQFTNSQGEREADFINCVMWRKAAENFAKYTHKGSLVGIEGRIQTR
SYENQQGQRVYVTEIVADNFSLLDSKPKGNQQNNAQQASTPGDPFANGGQSIDIGDDDLPF
MINRTVLIGRLTKDVELRHTAKGDAVASFTVAVNRQFTNSQGEREADFINCVMWRKAAENFAKYTHKGSLVGIEGRIQTR
SYENQQGQRVYVTEIVADNFSLLDSKPKGNQQNNAQQASTPGDPFANGGQSIDIGDDDLPF
Nucleotide
Download Length: 426 bp
>NTDB_id=1015687 ABVT38_RS06000 WP_350303037.1 1221793..1222218(-) (ssb) [Pediococcus acidilactici strain PA_ZFRA1]
ATGATTAATCGAACAGTACTAATAGGGCGCCTGACTAAAGATGTTGAGCTTCGCCACACGGCTAAAGGCGATGCGGTAGC
TAGTTTTACCGTGGCAGTTAACCGACAGTTTACCAACTCACAGGGTGAACGTGAAGCGGATTTCATCAACTGTGTAATGT
GGCGGAAAGCGGCGGAAAACTTTGCTAAGTACACACACAAGGGTTCGTTGGTAGGTATTGAAGGGCGGATTCAAACCCGT
TCATACGAAAACCAACAAGGGCAACGAGTATACGTTACCGAAATTGTAGCGGATAACTTCTCACTGCTAGATTCGAAACC
AAAAGGCAACCAGCAAAATAACGCACAGCAAGCATCAACGCCGGGAGATCCATTCGCTAATGGCGGACAGTCAATCGATA
TTGGTGACGACGATTTACCGTTTTAG
ATGATTAATCGAACAGTACTAATAGGGCGCCTGACTAAAGATGTTGAGCTTCGCCACACGGCTAAAGGCGATGCGGTAGC
TAGTTTTACCGTGGCAGTTAACCGACAGTTTACCAACTCACAGGGTGAACGTGAAGCGGATTTCATCAACTGTGTAATGT
GGCGGAAAGCGGCGGAAAACTTTGCTAAGTACACACACAAGGGTTCGTTGGTAGGTATTGAAGGGCGGATTCAAACCCGT
TCATACGAAAACCAACAAGGGCAACGAGTATACGTTACCGAAATTGTAGCGGATAACTTCTCACTGCTAGATTCGAAACC
AAAAGGCAACCAGCAAAATAACGCACAGCAAGCATCAACGCCGGGAGATCCATTCGCTAATGGCGGACAGTCAATCGATA
TTGGTGACGACGATTTACCGTTTTAG
3D structure
| Source | ID | Structure |
|---|
Similar proteins
Only experimentally validated proteins are listed.
| Protein | Organism | Identities (%) | Coverage (%) | Ha-value |
|---|---|---|---|---|
| ssb | Latilactobacillus sakei subsp. sakei 23K |
58.824 |
100 |
0.709 |
| ssbA | Bacillus subtilis subsp. subtilis str. 168 |
53.488 |
100 |
0.652 |
| ssbB | Bacillus subtilis subsp. subtilis str. 168 |
60.185 |
76.596 |
0.461 |
| ssbB | Streptococcus sobrinus strain NIDR 6715-7 |
41.549 |
100 |
0.418 |
| ssbB/cilA | Streptococcus mitis NCTC 12261 |
40.845 |
100 |
0.411 |
| ssbB/cilA | Streptococcus pneumoniae TIGR4 |
40.845 |
100 |
0.411 |
| ssbB/cilA | Streptococcus pneumoniae Rx1 |
40.141 |
100 |
0.404 |
| ssbB/cilA | Streptococcus pneumoniae D39 |
40.141 |
100 |
0.404 |
| ssbB/cilA | Streptococcus pneumoniae R6 |
40.141 |
100 |
0.404 |
| ssbB/cilA | Streptococcus mitis SK321 |
40.141 |
100 |
0.404 |
| ssbA | Streptococcus mutans UA159 |
36.62 |
100 |
0.369 |