Detailed information    

insolico Bioinformatically predicted

Overview

Name   ssb   Type   Machinery gene
Locus tag   C7M46_RS08800 Genome accession   NZ_CP028259
Coordinates   1755354..1755836 (+) Length   160 a.a.
NCBI ID   WP_160208593.1    Uniprot ID   -
Organism   Pediococcus pentosaceus strain SRCM102736     
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 1745624..1755836 1755354..1755836 within 0


Gene organization within MGE regions


Location: 1745624..1755836
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  C7M46_RS08725 (C7M46_01765) - 1745624..1746796 (-) 1173 WP_160208579.1 tyrosine-type recombinase/integrase -
  C7M46_RS08730 (C7M46_01766) - 1746893..1747195 (-) 303 WP_160208581.1 hypothetical protein -
  C7M46_RS08735 (C7M46_01768) - 1747504..1748445 (-) 942 WP_160208583.1 hypothetical protein -
  C7M46_RS08740 (C7M46_01769) - 1748532..1749644 (-) 1113 WP_160208585.1 DUF4236 domain-containing protein -
  C7M46_RS08745 (C7M46_01770) - 1749756..1750193 (-) 438 WP_141822567.1 hypothetical protein -
  C7M46_RS08750 (C7M46_01771) - 1750249..1750647 (-) 399 WP_069825264.1 hypothetical protein -
  C7M46_RS08755 (C7M46_01772) - 1750651..1751025 (-) 375 WP_081332163.1 helix-turn-helix domain-containing protein -
  C7M46_RS08760 (C7M46_01773) - 1751189..1751422 (+) 234 WP_069825265.1 XRE family transcriptional regulator -
  C7M46_RS08765 (C7M46_01774) - 1751419..1751661 (+) 243 WP_141822569.1 hypothetical protein -
  C7M46_RS08770 (C7M46_01775) - 1751735..1752193 (+) 459 WP_236654864.1 helix-turn-helix domain-containing protein -
  C7M46_RS08775 (C7M46_01776) - 1752194..1752469 (+) 276 WP_158190597.1 helix-turn-helix domain-containing protein -
  C7M46_RS09210 (C7M46_01777) - 1752483..1752614 (+) 132 WP_256677761.1 hypothetical protein -
  C7M46_RS08780 (C7M46_01778) - 1752707..1752949 (+) 243 WP_160208586.1 hypothetical protein -
  C7M46_RS08785 (C7M46_01779) - 1752946..1753596 (+) 651 WP_160208588.1 ERF family protein -
  C7M46_RS08790 (C7M46_01780) - 1753606..1754481 (+) 876 WP_160208590.1 helix-turn-helix domain-containing protein -
  C7M46_RS08795 (C7M46_01781) - 1754485..1755180 (+) 696 WP_160208591.1 putative HNHc nuclease -
  C7M46_RS08800 (C7M46_01782) ssb 1755354..1755836 (+) 483 WP_160208593.1 single-stranded DNA-binding protein Machinery gene

Sequence

Protein


Download         Length: 160 a.a.        Molecular weight: 18169.87 Da        Isoelectric Point: 6.9543

>NTDB_id=283811 C7M46_RS08800 WP_160208593.1 1755354..1755836(+) (ssb) [Pediococcus pentosaceus strain SRCM102736]
MINRTVLVGRLTNDPELKYTGNGVAVATFTVAVNRQFTNSQGEREADFIRCQMWRKSAENFCNFTHKGSLVGIDGRIQTR
SYDNQQGTRVFVTEVVAENFSLLESKNSNQNNQSEQFEQNRPQNNGKNYQNQQNGQSSPNRNPNDPFNSMPDIKGDDLPF

Nucleotide


Download         Length: 483 bp        

>NTDB_id=283811 C7M46_RS08800 WP_160208593.1 1755354..1755836(+) (ssb) [Pediococcus pentosaceus strain SRCM102736]
ATGATTAATCGAACAGTATTAGTCGGACGCTTAACTAACGATCCAGAACTAAAATACACCGGCAATGGTGTAGCAGTTGC
AACTTTTACAGTAGCTGTTAATCGGCAATTTACTAATTCGCAAGGCGAACGTGAAGCGGATTTTATTAGATGCCAAATGT
GGCGTAAATCTGCTGAAAATTTTTGTAACTTCACTCACAAGGGTTCACTAGTTGGCATTGACGGACGGATTCAAACTCGT
TCATACGATAATCAGCAAGGTACACGAGTTTTTGTTACTGAGGTCGTAGCTGAGAACTTCTCGCTACTTGAATCTAAAAA
CAGCAATCAAAATAACCAAAGTGAACAATTTGAACAAAATAGACCTCAAAATAATGGAAAAAATTACCAGAATCAACAAA
ATGGTCAATCATCACCTAACAGAAATCCTAATGATCCATTTAATAGCATGCCGGATATCAAGGGTGACGATTTACCGTTC
TAG

Domains

Predicted by InterproScan.

Single-strand binding protein family (SSB)

(2-102)


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
  ssb Latilactobacillus sakei subsp. sakei 23K

57.471

100

0.625
  ssbA Bacillus subtilis subsp. subtilis str. 168

55.747

100

0.606
  ssbB Bacillus subtilis subsp. subtilis str. 168

55.66

66.25

0.369

Multiple sequence alignment