Detailed information
Bioinformatically predicted
Overview
| Name | ssb | Type | Machinery gene |
| Locus tag | QYM39_RS04205 | Genome accession | NZ_CP129525 |
| Coordinates | 850751..851224 (+) | Length | 157 a.a. |
| NCBI ID | WP_260295178.1 | Uniprot ID | - |
| Organism | Pediococcus pentosaceus strain ZZ61 | ||
| 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 | 840842..878499 | 850751..851224 | within | 0 |
Gene organization within MGE regions
Location: 840842..878499
| Locus tag | Gene name | Coordinates (strand) | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| QYM39_RS04130 (QYM39_04130) | - | 840842..842014 (-) | 1173 | WP_301854006.1 | site-specific integrase | - |
| QYM39_RS04135 (QYM39_04135) | - | 842117..842608 (-) | 492 | WP_260295155.1 | hypothetical protein | - |
| QYM39_RS04140 (QYM39_04140) | - | 842691..843704 (-) | 1014 | WP_260295156.1 | DUF3862 domain-containing protein | - |
| QYM39_RS04145 (QYM39_04145) | - | 843787..844173 (-) | 387 | WP_260295157.1 | tetratricopeptide repeat protein | - |
| QYM39_RS04150 (QYM39_04150) | - | 844694..845101 (-) | 408 | WP_195753212.1 | ImmA/IrrE family metallo-endopeptidase | - |
| QYM39_RS04155 (QYM39_04155) | - | 845113..845487 (-) | 375 | WP_249398716.1 | helix-turn-helix transcriptional regulator | - |
| QYM39_RS04160 (QYM39_04160) | - | 845658..845876 (+) | 219 | WP_229564764.1 | helix-turn-helix transcriptional regulator | - |
| QYM39_RS04165 (QYM39_04165) | - | 845910..846080 (+) | 171 | WP_195748902.1 | hypothetical protein | - |
| QYM39_RS04170 (QYM39_04170) | - | 846154..846612 (+) | 459 | WP_260295165.1 | helix-turn-helix domain-containing protein | - |
| QYM39_RS04175 (QYM39_04175) | - | 846613..846888 (+) | 276 | WP_260295167.1 | helix-turn-helix domain-containing protein | - |
| QYM39_RS04180 (QYM39_04180) | - | 847126..847407 (+) | 282 | WP_301854014.1 | hypothetical protein | - |
| QYM39_RS04185 (QYM39_04185) | - | 847400..848251 (+) | 852 | WP_260295171.1 | RecT family recombinase | - |
| QYM39_RS04190 (QYM39_04190) | - | 848211..849038 (+) | 828 | WP_260295173.1 | PD-(D/E)XK nuclease-like domain-containing protein | - |
| QYM39_RS04195 (QYM39_04195) | - | 849048..849878 (+) | 831 | WP_260295175.1 | helix-turn-helix domain-containing protein | - |
| QYM39_RS04200 (QYM39_04200) | - | 849882..850577 (+) | 696 | WP_260295177.1 | putative HNHc nuclease | - |
| QYM39_RS04205 (QYM39_04205) | ssb | 850751..851224 (+) | 474 | WP_260295178.1 | single-stranded DNA-binding protein | Machinery gene |
| QYM39_RS04210 (QYM39_04210) | - | 851374..851691 (+) | 318 | WP_260295180.1 | DeoR family transcriptional regulator | - |
| QYM39_RS04215 (QYM39_04215) | - | 851855..852391 (+) | 537 | WP_301854023.1 | hypothetical protein | - |
| QYM39_RS04220 (QYM39_04220) | - | 852468..852926 (+) | 459 | WP_195751013.1 | hypothetical protein | - |
| QYM39_RS04225 (QYM39_04225) | - | 852969..853904 (+) | 936 | WP_195751014.1 | hypothetical protein | - |
| QYM39_RS04230 (QYM39_04230) | - | 854101..854499 (+) | 399 | WP_195751015.1 | hypothetical protein | - |
| QYM39_RS04235 (QYM39_04235) | - | 854624..854977 (+) | 354 | WP_195751016.1 | hypothetical protein | - |
| QYM39_RS04240 (QYM39_04240) | - | 855050..855391 (+) | 342 | WP_195751017.1 | phBC6A51 family helix-turn-helix protein | - |
| QYM39_RS04245 (QYM39_04245) | - | 855384..856655 (+) | 1272 | WP_260295396.1 | PBSX family phage terminase large subunit | - |
| QYM39_RS04250 (QYM39_04250) | - | 856661..858256 (+) | 1596 | WP_195751018.1 | phage portal protein | - |
| QYM39_RS04255 (QYM39_04255) | - | 858240..859184 (+) | 945 | WP_259765510.1 | minor capsid protein | - |
| QYM39_RS04260 (QYM39_04260) | - | 859240..859398 (+) | 159 | WP_195751021.1 | hypothetical protein | - |
| QYM39_RS04265 (QYM39_04265) | - | 859501..860076 (+) | 576 | WP_195751022.1 | DUF4355 domain-containing protein | - |
| QYM39_RS04270 (QYM39_04270) | - | 860089..860946 (+) | 858 | WP_259765511.1 | capsid protein | - |
| QYM39_RS04275 (QYM39_04275) | - | 860964..861230 (+) | 267 | WP_195751174.1 | Ig-like domain-containing protein | - |
| QYM39_RS04280 (QYM39_04280) | - | 861244..861582 (+) | 339 | WP_260295192.1 | phage head-tail connector protein | - |
| QYM39_RS04285 (QYM39_04285) | - | 861582..861872 (+) | 291 | WP_195751025.1 | hypothetical protein | - |
| QYM39_RS04290 (QYM39_04290) | - | 861869..862225 (+) | 357 | WP_195751026.1 | HK97-gp10 family putative phage morphogenesis protein | - |
| QYM39_RS04295 (QYM39_04295) | - | 862323..862586 (+) | 264 | WP_301854040.1 | hypothetical protein | - |
| QYM39_RS04300 (QYM39_04300) | - | 862604..863200 (+) | 597 | WP_195751028.1 | phage major tail protein, TP901-1 family | - |
| QYM39_RS04305 (QYM39_04305) | - | 863190..863450 (+) | 261 | WP_195751029.1 | Ig-like domain-containing protein | - |
| QYM39_RS04310 (QYM39_04310) | - | 863529..863978 (+) | 450 | WP_195751030.1 | tail assembly chaperone | - |
| QYM39_RS04315 (QYM39_04315) | - | 864068..864286 (+) | 219 | WP_195751031.1 | hypothetical protein | - |
| QYM39_RS04320 (QYM39_04320) | - | 864286..867318 (+) | 3033 | WP_301854043.1 | phage tail tape measure protein | - |
| QYM39_RS04325 (QYM39_04325) | - | 867318..868106 (+) | 789 | WP_301854045.1 | hypothetical protein | - |
| QYM39_RS04330 (QYM39_04330) | - | 868121..868951 (+) | 831 | WP_195751032.1 | phage tail protein | - |
| QYM39_RS04335 (QYM39_04335) | - | 868970..873436 (+) | 4467 | WP_301854048.1 | phage tail protein | - |
| QYM39_RS04340 (QYM39_04340) | - | 873433..873672 (+) | 240 | WP_195751034.1 | hypothetical protein | - |
| QYM39_RS04345 (QYM39_04345) | - | 873662..874087 (+) | 426 | WP_195751035.1 | hypothetical protein | - |
| QYM39_RS04350 (QYM39_04350) | - | 874089..874340 (+) | 252 | WP_195751036.1 | hypothetical protein | - |
| QYM39_RS04355 (QYM39_04355) | - | 874374..874892 (+) | 519 | WP_195751037.1 | phage holin family protein | - |
| QYM39_RS04360 (QYM39_04360) | - | 874876..875994 (+) | 1119 | WP_229563985.1 | N-acetylmuramoyl-L-alanine amidase | - |
| QYM39_RS04365 (QYM39_04365) | - | 877123..878499 (+) | 1377 | WP_128886915.1 | amino acid permease | - |
Sequence
Protein
Download Length: 157 a.a. Molecular weight: 17828.52 Da Isoelectric Point: 5.9041
>NTDB_id=853897 QYM39_RS04205 WP_260295178.1 850751..851224(+) (ssb) [Pediococcus pentosaceus strain ZZ61]
MINRTVLVGRLTNDPELKYTGNDVAVATFTVAVNRQFTNSQGEREADFIRCQMWRKAAENFCNFTHKGSLVGIDGRIQTR
SYDNQQGTRVFVTEVVAEKFSLLESKNSSQNEQFEQNRPQNNGQNYQNKQNGQSSPSRNPNDLFSSAPQINDDDLPF
MINRTVLVGRLTNDPELKYTGNDVAVATFTVAVNRQFTNSQGEREADFIRCQMWRKAAENFCNFTHKGSLVGIDGRIQTR
SYDNQQGTRVFVTEVVAEKFSLLESKNSSQNEQFEQNRPQNNGQNYQNKQNGQSSPSRNPNDLFSSAPQINDDDLPF
Nucleotide
Download Length: 474 bp
>NTDB_id=853897 QYM39_RS04205 WP_260295178.1 850751..851224(+) (ssb) [Pediococcus pentosaceus strain ZZ61]
ATGATTAATCGAACAGTATTGGTCGGGCGGTTAACTAATGATCCAGAACTAAAATACACAGGCAATGATGTAGCAGTTGC
AACTTTTACAGTAGCCGTAAATCGGCAATTTACTAATTCGCAAGGCGAACGTGAAGCGGATTTTATTAGATGCCAAATGT
GGCGCAAAGCTGCTGAAAACTTCTGTAACTTTACTCACAAAGGTTCACTGGTTGGTATCGATGGCCGGATTCAAACTCGT
TCATACGATAATCAGCAAGGTACACGAGTTTTTGTTACTGAGGTCGTAGCTGAGAAATTCTCACTACTTGAGTCCAAAAA
CAGTAGTCAAAATGAACAATTTGAACAGAATAGACCTCAAAACAATGGACAAAATTATCAGAATAAACAAAATGGTCAAT
CATCACCTAGTAGAAATCCTAATGATCTATTTAGTAGTGCACCACAGATTAACGATGACGATTTACCATTCTAG
ATGATTAATCGAACAGTATTGGTCGGGCGGTTAACTAATGATCCAGAACTAAAATACACAGGCAATGATGTAGCAGTTGC
AACTTTTACAGTAGCCGTAAATCGGCAATTTACTAATTCGCAAGGCGAACGTGAAGCGGATTTTATTAGATGCCAAATGT
GGCGCAAAGCTGCTGAAAACTTCTGTAACTTTACTCACAAAGGTTCACTGGTTGGTATCGATGGCCGGATTCAAACTCGT
TCATACGATAATCAGCAAGGTACACGAGTTTTTGTTACTGAGGTCGTAGCTGAGAAATTCTCACTACTTGAGTCCAAAAA
CAGTAGTCAAAATGAACAATTTGAACAGAATAGACCTCAAAACAATGGACAAAATTATCAGAATAAACAAAATGGTCAAT
CATCACCTAGTAGAAATCCTAATGATCTATTTAGTAGTGCACCACAGATTAACGATGACGATTTACCATTCTAG
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 |
54.706 |
100 |
0.592 |
| ssbA | Bacillus subtilis subsp. subtilis str. 168 |
52 |
100 |
0.58 |
| ssbB | Bacillus subtilis subsp. subtilis str. 168 |
54.717 |
67.516 |
0.369 |