Detailed information    

insolico Bioinformatically predicted

Overview

Name   ssbA   Type   Machinery gene
Locus tag   PZB81_RS08975 Genome accession   NZ_CP119047
Coordinates   1881636..1882106 (-) Length   156 a.a.
NCBI ID   WP_002493401.1    Uniprot ID   -
Organism   Staphylococcus epidermidis strain N2     
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 1845104..1890886 1881636..1882106 within 0


Gene organization within MGE regions


Location: 1845104..1890886
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  PZB81_RS08720 (PZB81_08720) - 1845104..1845541 (-) 438 WP_002493351.1 hypothetical protein -
  PZB81_RS08725 (PZB81_08725) - 1846021..1847229 (-) 1209 WP_002493352.1 Fic family protein -
  PZB81_RS08730 (PZB81_08730) - 1847641..1849044 (-) 1404 WP_002493353.1 N-acetylmuramoyl-L-alanine amidase -
  PZB81_RS08735 (PZB81_08735) - 1849044..1849313 (-) 270 WP_002493354.1 phage holin -
  PZB81_RS08740 (PZB81_08740) - 1849369..1849899 (-) 531 WP_002493355.1 hypothetical protein -
  PZB81_RS08745 (PZB81_08745) - 1849899..1850408 (-) 510 WP_002493356.1 hypothetical protein -
  PZB81_RS08750 (PZB81_08750) - 1850461..1850670 (-) 210 Protein_1690 CHAP domain-containing protein -
  PZB81_RS08755 (PZB81_08755) - 1850674..1850922 (-) 249 Protein_1691 phage holin -
  PZB81_RS08760 (PZB81_08760) - 1850986..1851384 (-) 399 WP_002493358.1 YxeA family protein -
  PZB81_RS08765 (PZB81_08765) - 1851512..1851658 (-) 147 WP_002493359.1 XkdX family protein -
  PZB81_RS08770 (PZB81_08770) - 1851651..1851986 (-) 336 WP_002493360.1 hypothetical protein -
  PZB81_RS08775 (PZB81_08775) - 1851998..1853656 (-) 1659 WP_002493361.1 BppU family phage baseplate upper protein -
  PZB81_RS08780 (PZB81_08780) - 1853709..1855625 (-) 1917 WP_275113478.1 glucosaminidase domain-containing protein -
  PZB81_RS08785 (PZB81_08785) - 1855680..1856078 (-) 399 WP_002493363.1 hypothetical protein -
  PZB81_RS08790 (PZB81_08790) - 1856059..1856481 (-) 423 WP_002493364.1 hypothetical protein -
  PZB81_RS08795 (PZB81_08795) - 1856495..1857682 (-) 1188 WP_002493365.1 BppU family phage baseplate upper protein -
  PZB81_RS08800 (PZB81_08800) - 1857698..1859581 (-) 1884 WP_002493366.1 M14 family metallopeptidase -
  PZB81_RS08805 (PZB81_08805) - 1859584..1861044 (-) 1461 WP_002493367.1 phage tail protein -
  PZB81_RS08810 (PZB81_08810) - 1861056..1862012 (-) 957 WP_002493368.1 phage tail domain-containing protein -
  PZB81_RS08815 (PZB81_08815) - 1862024..1865743 (-) 3720 WP_002493369.1 hypothetical protein -
  PZB81_RS08820 (PZB81_08820) - 1865758..1866102 (-) 345 WP_033862682.1 hypothetical protein -
  PZB81_RS08825 (PZB81_08825) - 1866144..1866503 (-) 360 WP_002493371.1 tail assembly chaperone -
  PZB81_RS08830 (PZB81_08830) - 1866568..1867122 (-) 555 WP_002493372.1 phage major tail protein, TP901-1 family -
  PZB81_RS08835 (PZB81_08835) - 1867165..1867554 (-) 390 WP_002493373.1 hypothetical protein -
  PZB81_RS08840 (PZB81_08840) - 1867554..1867916 (-) 363 WP_002493374.1 HK97-gp10 family putative phage morphogenesis protein -
  PZB81_RS08845 (PZB81_08845) - 1867916..1868218 (-) 303 WP_002493375.1 hypothetical protein -
  PZB81_RS08850 (PZB81_08850) - 1868215..1868544 (-) 330 WP_002493376.1 phage head-tail connector protein -
  PZB81_RS08855 (PZB81_08855) - 1868546..1868815 (-) 270 WP_002493377.1 hypothetical protein -
  PZB81_RS08860 (PZB81_08860) - 1868837..1869763 (-) 927 WP_002493378.1 phage major capsid protein -
  PZB81_RS08865 (PZB81_08865) - 1869780..1870385 (-) 606 WP_002493379.1 DUF4355 domain-containing protein -
  PZB81_RS08870 (PZB81_08870) - 1870639..1870782 (-) 144 WP_002493380.1 hypothetical protein -
  PZB81_RS08875 (PZB81_08875) - 1870775..1871323 (-) 549 WP_002493381.1 hypothetical protein -
  PZB81_RS08880 (PZB81_08880) - 1871337..1872275 (-) 939 WP_002493382.1 minor capsid protein -
  PZB81_RS08885 (PZB81_08885) - 1872282..1873811 (-) 1530 WP_002493383.1 phage portal protein -
  PZB81_RS08890 (PZB81_08890) - 1873823..1875121 (-) 1299 WP_002493384.1 PBSX family phage terminase large subunit -
  PZB81_RS08895 (PZB81_08895) - 1875124..1875549 (-) 426 WP_002493385.1 terminase small subunit -
  PZB81_RS08900 (PZB81_08900) - 1875633..1876121 (-) 489 WP_002493386.1 hypothetical protein -
  PZB81_RS08905 (PZB81_08905) - 1876431..1876847 (-) 417 WP_002493387.1 hypothetical protein -
  PZB81_RS08910 (PZB81_08910) - 1876847..1877299 (-) 453 WP_002493388.1 hypothetical protein -
  PZB81_RS08915 (PZB81_08915) - 1877305..1877445 (-) 141 WP_002493389.1 hypothetical protein -
  PZB81_RS08920 (PZB81_08920) - 1877447..1877617 (-) 171 WP_002493390.1 hypothetical protein -
  PZB81_RS08925 (PZB81_08925) - 1877623..1877835 (-) 213 WP_002493391.1 DUF1381 domain-containing protein -
  PZB81_RS08930 (PZB81_08930) - 1877875..1878402 (-) 528 WP_002493392.1 dUTP diphosphatase -
  PZB81_RS08935 (PZB81_08935) - 1878403..1878609 (-) 207 WP_002493393.1 hypothetical protein -
  PZB81_RS08940 (PZB81_08940) - 1878602..1878946 (-) 345 WP_002493394.1 hypothetical protein -
  PZB81_RS08945 (PZB81_08945) - 1878988..1879251 (-) 264 WP_002493395.1 hypothetical protein -
  PZB81_RS08950 (PZB81_08950) - 1879241..1879450 (-) 210 WP_002493396.1 hypothetical protein -
  PZB81_RS08955 (PZB81_08955) - 1879440..1879916 (-) 477 WP_002493397.1 DUF3310 domain-containing protein -
  PZB81_RS08960 (PZB81_08960) - 1879913..1880272 (-) 360 WP_002493398.1 SA1788 family PVL leukocidin-associated protein -
  PZB81_RS08965 (PZB81_08965) - 1880273..1880680 (-) 408 WP_002493399.1 RusA family crossover junction endodeoxyribonuclease -
  PZB81_RS08970 (PZB81_08970) - 1880719..1881606 (-) 888 WP_002493400.1 DnaD domain protein -
  PZB81_RS08975 (PZB81_08975) ssbA 1881636..1882106 (-) 471 WP_002493401.1 single-stranded DNA-binding protein Machinery gene
  PZB81_RS08980 (PZB81_08980) - 1882107..1882736 (-) 630 WP_332829396.1 MBL fold metallo-hydrolase -
  PZB81_RS08985 (PZB81_08985) - 1882805..1883740 (-) 936 WP_002493403.1 RecT family recombinase -
  PZB81_RS08990 (PZB81_08990) - 1883742..1885694 (-) 1953 WP_002493404.1 AAA family ATPase -
  PZB81_RS08995 (PZB81_08995) - 1885763..1885939 (-) 177 WP_002493405.1 hypothetical protein -
  PZB81_RS09000 (PZB81_09000) - 1886005..1886214 (-) 210 WP_001830281.1 hypothetical protein -
  PZB81_RS09005 (PZB81_09005) - 1886227..1886946 (-) 720 WP_002493406.1 phage repressor protein -
  PZB81_RS09010 (PZB81_09010) - 1886996..1887235 (+) 240 WP_002475580.1 hypothetical protein -
  PZB81_RS09015 (PZB81_09015) - 1887225..1887404 (-) 180 WP_002475588.1 hypothetical protein -
  PZB81_RS09020 (PZB81_09020) - 1887418..1887657 (-) 240 WP_002493407.1 helix-turn-helix transcriptional regulator -
  PZB81_RS09025 (PZB81_09025) - 1887851..1888180 (+) 330 WP_002493408.1 helix-turn-helix transcriptional regulator -
  PZB81_RS09030 (PZB81_09030) - 1888192..1888653 (+) 462 WP_002493409.1 ImmA/IrrE family metallo-endopeptidase -
  PZB81_RS09035 (PZB81_09035) - 1888883..1889191 (+) 309 WP_002493410.1 hypothetical protein -
  PZB81_RS09040 (PZB81_09040) - 1889193..1889774 (+) 582 WP_002493411.1 hypothetical protein -
  PZB81_RS09045 (PZB81_09045) - 1889837..1890886 (+) 1050 WP_002493412.1 site-specific integrase -

Sequence

Protein


Download         Length: 156 a.a.        Molecular weight: 17451.15 Da        Isoelectric Point: 4.7719

>NTDB_id=797398 PZB81_RS08975 WP_002493401.1 1881636..1882106(-) (ssbA) [Staphylococcus epidermidis strain N2]
MINRVVLVGRLTKDPEFRTTPNGVEVTNFTLAINRNFTNAQGEREADFINVITFRKQAVNVNEYLSKGKLAGVDGRIQSR
SYENQEGRRIFVTEVVADSVQFLEPKNSNGGQQDSYQQQTRAQQGQSRQQSNEPVGDNPFANANGPIDISDDDLPF

Nucleotide


Download         Length: 471 bp        

>NTDB_id=797398 PZB81_RS08975 WP_002493401.1 1881636..1882106(-) (ssbA) [Staphylococcus epidermidis strain N2]
ATGATTAATAGAGTTGTATTAGTAGGAAGATTGACAAAAGATCCAGAGTTTAGAACTACGCCTAACGGTGTTGAAGTAAC
AAACTTCACACTAGCGATTAATCGTAATTTTACGAACGCACAAGGCGAACGTGAAGCAGATTTTATAAACGTTATAACTT
TCAGAAAGCAAGCTGTAAATGTAAACGAGTATTTATCTAAAGGAAAATTAGCAGGCGTTGATGGTCGTATTCAATCACGC
AGCTATGAAAATCAAGAAGGTCGTCGAATATTTGTGACTGAAGTTGTCGCAGATAGCGTTCAATTTCTTGAACCTAAAAA
TTCAAATGGTGGCCAACAAGACTCTTATCAACAACAAACAAGAGCTCAGCAAGGACAAAGCAGACAACAAAGCAATGAAC
CGGTTGGGGATAACCCGTTTGCAAACGCTAATGGTCCAATTGATATTAGTGATGACGATTTACCATTTTAA

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

58.382

100

0.647
  ssb Latilactobacillus sakei subsp. sakei 23K

50

100

0.545
  ssbB Bacillus subtilis subsp. subtilis str. 168

57.547

67.949

0.391
  ssb Neisseria meningitidis MC58

34.104

100

0.378
  ssb Neisseria gonorrhoeae MS11

34.104

100

0.378
  ssb Vibrio cholerae strain A1552

33.908

100

0.378
  ssb Glaesserella parasuis strain SC1401

33.333

100

0.378