Detailed information    

insolico Bioinformatically predicted

Overview

Name   ssbA   Type   Machinery gene
Locus tag   NF392_RS08920 Genome accession   NZ_CP102089
Coordinates   1874718..1875131 (-) Length   137 a.a.
NCBI ID   WP_049399325.1    Uniprot ID   -
Organism   Staphylococcus capitis subsp. capitis strain H17     
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 1837968..1883667 1874718..1875131 within 0


Gene organization within MGE regions


Location: 1837968..1883667
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  NF392_RS08650 - 1837968..1838165 (-) 198 WP_023350503.1 hypothetical protein -
  NF392_RS08655 - 1839115..1839300 (-) 186 WP_023350504.1 hypothetical protein -
  NF392_RS08660 - 1839302..1839412 (-) 111 WP_049307399.1 hypothetical protein -
  NF392_RS08665 - 1839483..1839634 (-) 152 Protein_1675 hypothetical protein -
  NF392_RS08670 - 1839781..1841244 (-) 1464 WP_023350505.1 SH3 domain-containing protein -
  NF392_RS08675 - 1841219..1841629 (-) 411 WP_023350506.1 phage holin -
  NF392_RS08680 - 1841674..1842207 (-) 534 WP_023350507.1 hypothetical protein -
  NF392_RS08685 - 1842207..1842722 (-) 516 WP_023350508.1 hypothetical protein -
  NF392_RS08690 - 1842764..1842910 (-) 147 WP_023350509.1 XkdX family protein -
  NF392_RS08695 - 1842903..1843247 (-) 345 WP_023350510.1 hypothetical protein -
  NF392_RS08700 - 1843259..1844917 (-) 1659 WP_023350511.1 BppU family phage baseplate upper protein -
  NF392_RS08705 - 1844970..1846172 (-) 1203 WP_080978319.1 N-acetylglucosaminidase -
  NF392_RS08710 - 1846764..1847096 (-) 333 WP_080668898.1 CHAP domain-containing protein -
  NF392_RS08715 - 1847372..1847503 (-) 132 WP_023350514.1 hypothetical protein -
  NF392_RS08720 - 1847557..1847955 (-) 399 WP_037560594.1 hypothetical protein -
  NF392_RS08725 - 1847936..1848358 (-) 423 WP_260832735.1 hypothetical protein -
  NF392_RS08730 - 1848372..1849559 (-) 1188 WP_023350517.1 BppU family phage baseplate upper protein -
  NF392_RS08735 - 1849572..1851446 (-) 1875 WP_124778642.1 M14 family metallopeptidase -
  NF392_RS08740 - 1851449..1852909 (-) 1461 WP_023350519.1 DUF7643 domain-containing protein -
  NF392_RS08745 - 1852921..1853877 (-) 957 WP_023350520.1 phage tail domain-containing protein -
  NF392_RS08750 - 1853889..1857818 (-) 3930 WP_049399432.1 tail protein -
  NF392_RS08755 - 1857833..1858177 (-) 345 WP_023350522.1 hypothetical protein -
  NF392_RS08760 - 1858219..1858578 (-) 360 WP_023350523.1 tail assembly chaperone -
  NF392_RS08765 - 1858641..1859195 (-) 555 WP_002436441.1 phage major tail protein, TP901-1 family -
  NF392_RS08770 - 1859242..1859631 (-) 390 WP_023350524.1 hypothetical protein -
  NF392_RS08775 - 1859925..1860611 (-) 687 WP_023350525.1 hypothetical protein -
  NF392_RS08780 - 1860735..1860983 (-) 249 Protein_1698 hypothetical protein -
  NF392_RS08785 - 1860983..1861285 (-) 303 WP_023350527.1 hypothetical protein -
  NF392_RS08790 - 1861282..1861611 (-) 330 WP_002436519.1 phage head-tail connector protein -
  NF392_RS08795 - 1861613..1861882 (-) 270 WP_023350528.1 hypothetical protein -
  NF392_RS08800 - 1861905..1862819 (-) 915 WP_260832742.1 phage major capsid protein -
  NF392_RS08805 - 1862836..1863450 (-) 615 WP_023350530.1 capsid assembly scaffolding protein Gp46 family protein -
  NF392_RS08810 - 1863703..1863846 (-) 144 WP_002436512.1 hypothetical protein -
  NF392_RS08815 - 1863839..1864384 (-) 546 WP_023350531.1 hypothetical protein -
  NF392_RS08820 - 1864404..1865354 (-) 951 WP_049399435.1 minor capsid protein -
  NF392_RS08825 - 1865361..1866857 (-) 1497 WP_023350534.1 phage portal protein -
  NF392_RS08830 - 1866871..1868163 (-) 1293 WP_023350535.1 PBSX family phage terminase large subunit -
  NF392_RS08835 - 1868156..1868497 (-) 342 WP_049307394.1 phBC6A51 family helix-turn-helix protein -
  NF392_RS08840 - 1868775..1869191 (-) 417 WP_002436508.1 hypothetical protein -
  NF392_RS08845 rinB 1869262..1869432 (-) 171 WP_002469957.1 transcriptional activator RinB -
  NF392_RS08850 - 1869438..1869578 (-) 141 WP_002475527.1 DUF1381 domain-containing protein -
  NF392_RS08855 - 1869580..1869756 (-) 177 WP_023350538.1 hypothetical protein -
  NF392_RS08860 dut 1869793..1870218 (-) 426 WP_049388193.1 dUTP diphosphatase -
  NF392_RS08865 - 1870220..1870417 (-) 198 WP_023350541.1 hypothetical protein -
  NF392_RS08870 - 1870401..1870955 (-) 555 WP_023350542.1 nucleoside 2-deoxyribosyltransferase -
  NF392_RS08875 - 1870958..1871155 (-) 198 WP_023350543.1 hypothetical protein -
  NF392_RS08880 - 1871156..1871503 (-) 348 WP_023350544.1 SA1788 family PVL leukocidin-associated protein -
  NF392_RS08885 - 1871504..1871695 (-) 192 WP_023350545.1 hypothetical protein -
  NF392_RS08890 - 1871685..1872095 (-) 411 WP_023350546.1 DUF1064 domain-containing protein -
  NF392_RS08895 - 1872104..1872349 (-) 246 WP_002469995.1 DUF3269 family protein -
  NF392_RS08900 - 1872352..1872507 (-) 156 WP_002469952.1 hypothetical protein -
  NF392_RS08905 - 1872501..1873271 (-) 771 WP_002470008.1 ATP-binding protein -
  NF392_RS08910 - 1873282..1874037 (-) 756 WP_037560596.1 conserved phage C-terminal domain-containing protein -
  NF392_RS08915 - 1874024..1874704 (-) 681 WP_023350548.1 putative HNHc nuclease -
  NF392_RS08920 ssbA 1874718..1875131 (-) 414 WP_049399325.1 single-stranded DNA-binding protein Machinery gene
  NF392_RS08925 - 1875124..1875777 (-) 654 WP_023350550.1 ERF family protein -
  NF392_RS08930 - 1875770..1875991 (-) 222 WP_023350551.1 DUF2483 family protein -
  NF392_RS08935 - 1875957..1876238 (-) 282 WP_023350552.1 hypothetical protein -
  NF392_RS08940 - 1876260..1876478 (-) 219 WP_023350553.1 hypothetical protein -
  NF392_RS08945 - 1876956..1877168 (-) 213 WP_002436465.1 DUF771 domain-containing protein -
  NF392_RS08950 - 1877172..1877339 (-) 168 WP_023350555.1 hypothetical protein -
  NF392_RS08955 - 1877441..1877635 (-) 195 WP_023350556.1 hypothetical protein -
  NF392_RS08960 - 1877718..1877894 (+) 177 WP_023350557.1 hypothetical protein -
  NF392_RS08970 - 1878108..1878284 (-) 177 WP_023350559.1 hypothetical protein -
  NF392_RS08975 - 1878367..1879137 (-) 771 WP_023350560.1 DUF6551 family protein -
  NF392_RS08980 - 1879134..1880090 (-) 957 WP_049307539.1 ParB N-terminal domain-containing protein -
  NF392_RS08985 - 1880106..1880345 (-) 240 WP_049399294.1 helix-turn-helix domain-containing protein -
  NF392_RS08990 - 1880539..1880868 (+) 330 WP_002469947.1 helix-turn-helix domain-containing protein -
  NF392_RS08995 - 1880880..1881341 (+) 462 WP_023350564.1 ImmA/IrrE family metallo-endopeptidase -
  NF392_RS09000 - 1881360..1881884 (+) 525 WP_023350565.1 Ltp family lipoprotein -
  NF392_RS09005 - 1881899..1882546 (+) 648 WP_023350566.1 hypothetical protein -
  NF392_RS09010 - 1882606..1883667 (+) 1062 WP_023350567.1 tyrosine-type recombinase/integrase -

Sequence

Protein


Download         Length: 137 a.a.        Molecular weight: 15558.23 Da        Isoelectric Point: 8.5209

>NTDB_id=714268 NF392_RS08920 WP_049399325.1 1874718..1875131(-) (ssbA) [Staphylococcus capitis subsp. capitis strain H17]
MINRFIGVGRLTKDPEFRTTPNGVSVTTFTIAVNRTFTNAQGEREADFINCVTFRKQADNVNKFLTKGSLAGVEGRIQTR
SYENNEGRRIFVTKVVCDSVQFLDTKNNNGNNNRQQTEQTQQEKPFDNGNDFPDLPF

Nucleotide


Download         Length: 414 bp        

>NTDB_id=714268 NF392_RS08920 WP_049399325.1 1874718..1875131(-) (ssbA) [Staphylococcus capitis subsp. capitis strain H17]
ATGATTAATCGTTTTATAGGTGTAGGAAGATTAACAAAAGATCCAGAATTCAGAACAACGCCAAATGGTGTCAGTGTGAC
AACTTTTACAATCGCAGTGAATAGAACGTTCACTAATGCTCAAGGAGAGCGTGAGGCTGATTTTATTAACTGTGTAACGT
TCAGAAAACAAGCTGATAACGTAAATAAGTTTTTAACAAAAGGGTCACTTGCAGGCGTTGAAGGTCGCATTCAAACGCGT
AGTTACGAAAACAATGAAGGTAGACGCATTTTTGTCACTAAGGTTGTGTGTGATAGCGTTCAGTTTTTAGATACAAAAAA
TAACAACGGAAATAATAACCGACAACAAACAGAACAAACGCAACAAGAGAAACCATTTGATAATGGCAACGATTTTCCTG
ACCTTCCTTTTTAA

Domains

Predicted by InterproScan.

Single-strand binding protein family (SSB)

(2-103)


Secondary structure

Protein secondary structures were predicted by S4PRED and visualized by seqviz.



3D structure

Source ID Structure

Transmembrane helices

Transmembrane helices of protein were predicted by TMHMM 2.0 and visualized by seqviz and ECharts.


Visualization of predicted probability:


Similar proteins

Only experimentally validated proteins are listed.

Protein Organism Identities (%) Coverage (%) Ha-value
  ssbA Bacillus subtilis subsp. subtilis str. 168

71.028

78.102

0.555
  ssb Latilactobacillus sakei subsp. sakei 23K

57.547

77.372

0.445
  ssbB Bacillus subtilis subsp. subtilis str. 168

55.66

77.372

0.431
  ssbB Streptococcus sobrinus strain NIDR 6715-7

39.394

96.35

0.38
  ssbB/cilA Streptococcus mitis NCTC 12261

39.394

96.35

0.38
  ssbB/cilA Streptococcus pneumoniae R6

38.636

96.35

0.372
  ssbB/cilA Streptococcus pneumoniae Rx1

38.636

96.35

0.372
  ssbB/cilA Streptococcus pneumoniae D39

38.636

96.35

0.372
  ssbB/cilA Streptococcus pneumoniae TIGR4

38.636

96.35

0.372
  ssbB/cilA Streptococcus mitis SK321

37.879

96.35

0.365
  ssbA Streptococcus mutans UA159

37.879

96.35

0.365