Detailed information
Bioinformatically predicted
Overview
| Name | ssb | Type | Machinery gene |
| Locus tag | ABOA60_RS04375 | Genome accession | NZ_CP158177 |
| Coordinates | 902357..902803 (+) | Length | 148 a.a. |
| NCBI ID | WP_159225216.1 | Uniprot ID | - |
| Organism | Pediococcus acidilactici strain PA_ZFRFD | ||
| 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 | 891467..932028 | 902357..902803 | within | 0 |
Gene organization within MGE regions
Location: 891467..932028
| Locus tag | Gene name | Coordinates (strand) | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| ABOA60_RS04280 (ABOA60_04275) | - | 891467..892642 (-) | 1176 | WP_159225226.1 | tyrosine-type recombinase/integrase | - |
| ABOA60_RS04285 (ABOA60_04280) | - | 892740..893546 (-) | 807 | WP_065124812.1 | DUF3037 domain-containing protein | - |
| ABOA60_RS04290 (ABOA60_04285) | - | 893548..894399 (-) | 852 | WP_350303121.1 | HipA family kinase | - |
| ABOA60_RS04295 (ABOA60_04290) | - | 894412..894837 (-) | 426 | WP_159225225.1 | SHOCT domain-containing protein | - |
| ABOA60_RS04300 (ABOA60_04295) | - | 894846..895364 (-) | 519 | WP_159225224.1 | SHOCT domain-containing protein | - |
| ABOA60_RS04305 (ABOA60_04300) | - | 895437..895844 (-) | 408 | WP_159225223.1 | ImmA/IrrE family metallo-endopeptidase | - |
| ABOA60_RS04310 (ABOA60_04305) | - | 895856..896227 (-) | 372 | WP_004165746.1 | helix-turn-helix domain-containing protein | - |
| ABOA60_RS04315 (ABOA60_04310) | - | 896388..896630 (+) | 243 | WP_004165747.1 | helix-turn-helix transcriptional regulator | - |
| ABOA60_RS04320 (ABOA60_04315) | - | 896627..896788 (+) | 162 | WP_159225222.1 | hypothetical protein | - |
| ABOA60_RS04325 (ABOA60_04320) | - | 896792..897376 (-) | 585 | WP_159225221.1 | hypothetical protein | - |
| ABOA60_RS04330 (ABOA60_04325) | - | 897443..897658 (+) | 216 | WP_159225220.1 | hypothetical protein | - |
| ABOA60_RS04335 (ABOA60_04330) | - | 897743..898207 (+) | 465 | WP_235019097.1 | helix-turn-helix transcriptional regulator | - |
| ABOA60_RS04340 (ABOA60_04335) | - | 898208..898489 (+) | 282 | WP_008840858.1 | hypothetical protein | - |
| ABOA60_RS04345 (ABOA60_04340) | - | 898491..898634 (+) | 144 | WP_158002712.1 | hypothetical protein | - |
| ABOA60_RS04350 (ABOA60_04345) | - | 898727..899620 (+) | 894 | WP_159225219.1 | DUF1351 domain-containing protein | - |
| ABOA60_RS04355 (ABOA60_04350) | - | 899622..900443 (+) | 822 | WP_159225218.1 | ERF family protein | - |
| ABOA60_RS04360 (ABOA60_04355) | - | 900436..901275 (+) | 840 | WP_350303122.1 | helix-turn-helix domain-containing protein | - |
| ABOA60_RS04365 (ABOA60_04360) | - | 901280..902002 (+) | 723 | WP_128472034.1 | putative HNHc nuclease | - |
| ABOA60_RS04370 (ABOA60_04365) | - | 901947..902354 (+) | 408 | WP_032540532.1 | hypothetical protein | - |
| ABOA60_RS04375 (ABOA60_04370) | ssb | 902357..902803 (+) | 447 | WP_159225216.1 | single-stranded DNA-binding protein | Machinery gene |
| ABOA60_RS04380 (ABOA60_04375) | - | 902814..903011 (+) | 198 | WP_159225215.1 | hypothetical protein | - |
| ABOA60_RS04385 (ABOA60_04380) | - | 903004..903246 (+) | 243 | WP_159225214.1 | hypothetical protein | - |
| ABOA60_RS04390 (ABOA60_04385) | - | 903401..903646 (+) | 246 | WP_159225213.1 | hypothetical protein | - |
| ABOA60_RS04395 (ABOA60_04390) | - | 903843..904274 (+) | 432 | WP_065124799.1 | ArpU family phage packaging/lysis transcriptional regulator | - |
| ABOA60_RS04405 (ABOA60_04400) | - | 904617..905237 (+) | 621 | WP_159225212.1 | hypothetical protein | - |
| ABOA60_RS04410 (ABOA60_04405) | - | 905339..905503 (+) | 165 | WP_195304742.1 | hypothetical protein | - |
| ABOA60_RS04415 (ABOA60_04410) | - | 905508..905759 (+) | 252 | WP_159225211.1 | hypothetical protein | - |
| ABOA60_RS04420 (ABOA60_04415) | - | 905766..906455 (+) | 690 | WP_235019096.1 | terminase | - |
| ABOA60_RS04425 (ABOA60_04420) | - | 906442..907749 (+) | 1308 | WP_159225210.1 | PBSX family phage terminase large subunit | - |
| ABOA60_RS04430 (ABOA60_04425) | - | 907813..909315 (+) | 1503 | WP_235019095.1 | phage portal protein | - |
| ABOA60_RS04435 (ABOA60_04430) | - | 909315..910448 (+) | 1134 | WP_159226116.1 | phage minor capsid protein | - |
| ABOA60_RS04440 (ABOA60_04435) | - | 910545..911102 (+) | 558 | WP_159225207.1 | phage scaffolding protein | - |
| ABOA60_RS04445 (ABOA60_04440) | - | 911114..912010 (+) | 897 | WP_133279911.1 | hypothetical protein | - |
| ABOA60_RS04450 (ABOA60_04445) | - | 912082..912501 (+) | 420 | WP_159225206.1 | hypothetical protein | - |
| ABOA60_RS04455 (ABOA60_04450) | - | 912498..912848 (+) | 351 | WP_159225205.1 | putative minor capsid protein | - |
| ABOA60_RS04460 (ABOA60_04455) | - | 912848..913192 (+) | 345 | WP_159225204.1 | minor capsid protein | - |
| ABOA60_RS04465 (ABOA60_04460) | - | 913192..913584 (+) | 393 | WP_159225203.1 | minor capsid protein | - |
| ABOA60_RS04470 (ABOA60_04465) | - | 913597..914139 (+) | 543 | WP_232621119.1 | capsid protein | - |
| ABOA60_RS04475 (ABOA60_04470) | - | 914213..914680 (+) | 468 | WP_271900561.1 | Ig-like domain-containing protein | - |
| ABOA60_RS04480 (ABOA60_04475) | - | 914757..915146 (+) | 390 | WP_159225201.1 | hypothetical protein | - |
| ABOA60_RS04485 (ABOA60_04480) | - | 915156..915782 (+) | 627 | WP_159225200.1 | Gp15 family bacteriophage protein | - |
| ABOA60_RS04490 (ABOA60_04485) | - | 915818..921046 (+) | 5229 | WP_159225199.1 | tape measure protein | - |
| ABOA60_RS04495 (ABOA60_04490) | - | 921047..921871 (+) | 825 | WP_350303123.1 | phage tail domain-containing protein | - |
| ABOA60_RS04500 (ABOA60_04495) | - | 921877..922998 (+) | 1122 | WP_159226117.1 | prophage endopeptidase tail family protein | - |
| ABOA60_RS04505 (ABOA60_04500) | - | 922991..923239 (+) | 249 | WP_159208603.1 | hypothetical protein | - |
| ABOA60_RS04510 (ABOA60_04505) | - | 923242..923565 (+) | 324 | WP_128472049.1 | hypothetical protein | - |
| ABOA60_RS04515 (ABOA60_04510) | - | 923565..925403 (+) | 1839 | WP_350303124.1 | BppU family phage baseplate upper protein | - |
| ABOA60_RS04520 (ABOA60_04515) | - | 925421..926185 (+) | 765 | WP_159225195.1 | hypothetical protein | - |
| ABOA60_RS04525 (ABOA60_04520) | - | 926187..926507 (+) | 321 | WP_159208917.1 | DUF2977 domain-containing protein | - |
| ABOA60_RS04530 (ABOA60_04525) | - | 926507..926653 (+) | 147 | WP_159208916.1 | XkdX family protein | - |
| ABOA60_RS04535 (ABOA60_04530) | - | 926760..926984 (+) | 225 | WP_159208965.1 | hypothetical protein | - |
| ABOA60_RS04540 (ABOA60_04535) | - | 926984..927241 (+) | 258 | WP_159208915.1 | phage holin | - |
| ABOA60_RS04545 (ABOA60_04540) | - | 927225..928346 (+) | 1122 | WP_159225194.1 | peptidoglycan recognition family protein | - |
| ABOA60_RS04550 (ABOA60_04545) | - | 928374..928973 (+) | 600 | WP_065124777.1 | GH25 family lysozyme | - |
| ABOA60_RS04555 (ABOA60_04550) | - | 929432..929752 (+) | 321 | WP_065124775.1 | acetyl-CoA carboxylase | - |
| ABOA60_RS04560 (ABOA60_04555) | - | 930124..931008 (-) | 885 | WP_232457164.1 | hypothetical protein | - |
| ABOA60_RS04565 (ABOA60_04560) | - | 931129..932028 (-) | 900 | WP_159208779.1 | hypothetical protein | - |
Sequence
Protein
Download Length: 148 a.a. Molecular weight: 16617.28 Da Isoelectric Point: 5.1660
>NTDB_id=1010087 ABOA60_RS04375 WP_159225216.1 902357..902803(+) (ssb) [Pediococcus acidilactici strain PA_ZFRFD]
MINRTVLVGRLTKDPEIRYTQSGMAVANFTMAVNRQFTNANGEREADFISCIVWRKAAENFCNFTHKGSLVGIDGRIQTS
SYEKEGQRVYATQVVVDSFSLLEPKQQSQQRGQQSNASNALHDNFGQPANNYSQNNDDFGIDDNDLPF
MINRTVLVGRLTKDPEIRYTQSGMAVANFTMAVNRQFTNANGEREADFISCIVWRKAAENFCNFTHKGSLVGIDGRIQTS
SYEKEGQRVYATQVVVDSFSLLEPKQQSQQRGQQSNASNALHDNFGQPANNYSQNNDDFGIDDNDLPF
Nucleotide
Download Length: 447 bp
>NTDB_id=1010087 ABOA60_RS04375 WP_159225216.1 902357..902803(+) (ssb) [Pediococcus acidilactici strain PA_ZFRFD]
ATGATTAATCGAACCGTATTAGTCGGTCGCCTAACCAAGGATCCAGAAATCCGTTACACCCAATCAGGGATGGCGGTGGC
CAACTTTACTATGGCCGTGAACCGGCAGTTCACCAACGCTAATGGCGAGCGAGAAGCGGACTTTATCAGCTGTATTGTCT
GGAGAAAGGCGGCCGAAAACTTCTGTAATTTTACCCACAAAGGATCATTGGTCGGGATTGATGGTCGGATTCAAACTAGT
TCGTACGAAAAGGAAGGTCAACGCGTGTATGCTACACAAGTGGTTGTAGATAGTTTCTCATTGTTAGAACCGAAACAGCA
GAGCCAACAACGTGGCCAGCAATCTAACGCTAGCAATGCTTTGCATGACAATTTTGGACAGCCTGCTAACAATTACAGCC
AGAATAATGACGATTTCGGCATTGATGATAATGATTTGCCGTTTTAG
ATGATTAATCGAACCGTATTAGTCGGTCGCCTAACCAAGGATCCAGAAATCCGTTACACCCAATCAGGGATGGCGGTGGC
CAACTTTACTATGGCCGTGAACCGGCAGTTCACCAACGCTAATGGCGAGCGAGAAGCGGACTTTATCAGCTGTATTGTCT
GGAGAAAGGCGGCCGAAAACTTCTGTAATTTTACCCACAAAGGATCATTGGTCGGGATTGATGGTCGGATTCAAACTAGT
TCGTACGAAAAGGAAGGTCAACGCGTGTATGCTACACAAGTGGTTGTAGATAGTTTCTCATTGTTAGAACCGAAACAGCA
GAGCCAACAACGTGGCCAGCAATCTAACGCTAGCAATGCTTTGCATGACAATTTTGGACAGCCTGCTAACAATTACAGCC
AGAATAATGACGATTTCGGCATTGATGATAATGATTTGCCGTTTTAG
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 |
55.233 |
100 |
0.642 |
| ssbA | Bacillus subtilis subsp. subtilis str. 168 |
50.581 |
100 |
0.588 |
| ssbB | Bacillus subtilis subsp. subtilis str. 168 |
55.455 |
74.324 |
0.412 |
| ssbB | Streptococcus sobrinus strain NIDR 6715-7 |
39.865 |
100 |
0.399 |
| ssbB/cilA | Streptococcus pneumoniae TIGR4 |
37.838 |
100 |
0.378 |
| ssbB/cilA | Streptococcus mitis NCTC 12261 |
37.838 |
100 |
0.378 |
| ssbB/cilA | Streptococcus pneumoniae Rx1 |
37.162 |
100 |
0.372 |
| ssbB/cilA | Streptococcus pneumoniae D39 |
37.162 |
100 |
0.372 |
| ssbB/cilA | Streptococcus pneumoniae R6 |
37.162 |
100 |
0.372 |
| ssbB/cilA | Streptococcus mitis SK321 |
37.162 |
100 |
0.372 |