Detailed information    

insolico Bioinformatically predicted

Overview

Name   ssb   Type   Machinery gene
Locus tag   QY868_RS08770 Genome accession   NZ_CP129528
Coordinates   1802166..1802594 (-) Length   142 a.a.
NCBI ID   WP_005917281.1    Uniprot ID   -
Organism   Pediococcus acidilactici strain A1602     
Function   ssDNA binding (predicted from homology)   
DNA processing

Genomic Context

Location: 1797166..1807594
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  QY868_RS08730 (QY868_08735) - 1797592..1797885 (-) 294 WP_005917252.1 hypothetical protein -
  QY868_RS08735 (QY868_08740) - 1797882..1798292 (-) 411 WP_005917255.1 YopX family protein -
  QY868_RS08740 (QY868_08745) - 1798292..1798663 (-) 372 WP_005917258.1 hypothetical protein -
  QY868_RS08745 (QY868_08750) - 1798784..1799185 (-) 402 WP_005917261.1 RusA family crossover junction endodeoxyribonuclease -
  QY868_RS08750 (QY868_08755) - 1799178..1799798 (-) 621 WP_005917265.1 hypothetical protein -
  QY868_RS08755 (QY868_08760) - 1799916..1800731 (-) 816 WP_005917271.1 ATP-binding protein -
  QY868_RS08760 (QY868_08765) - 1800712..1801476 (-) 765 WP_036686704.1 conserved phage C-terminal domain-containing protein -
  QY868_RS08765 (QY868_08770) - 1801454..1802155 (-) 702 WP_005917277.1 putative HNHc nuclease -
  QY868_RS08770 (QY868_08775) ssb 1802166..1802594 (-) 429 WP_005917281.1 single-stranded DNA-binding protein Machinery gene
  QY868_RS08775 (QY868_08780) - 1802587..1802793 (-) 207 WP_005917284.1 hypothetical protein -
  QY868_RS08780 (QY868_08785) - 1802786..1803484 (-) 699 WP_005917286.1 ERF family protein -
  QY868_RS08785 (QY868_08790) - 1803485..1803940 (-) 456 WP_005917288.1 hypothetical protein -
  QY868_RS08790 (QY868_08795) - 1804168..1804434 (+) 267 WP_005917292.1 hypothetical protein -
  QY868_RS08795 (QY868_08800) - 1804391..1804648 (-) 258 WP_005917294.1 hypothetical protein -
  QY868_RS08800 (QY868_08805) - 1804748..1805077 (-) 330 WP_005917296.1 DUF771 domain-containing protein -
  QY868_RS08805 (QY868_08810) - 1805091..1805825 (-) 735 WP_005917297.1 phage regulatory protein -
  QY868_RS08810 (QY868_08815) - 1805839..1806048 (-) 210 WP_002831840.1 helix-turn-helix transcriptional regulator -
  QY868_RS08815 (QY868_08820) - 1806306..1807064 (+) 759 WP_337456791.1 XRE family transcriptional regulator -
  QY868_RS08820 (QY868_08825) - 1807127..1807516 (+) 390 WP_036686707.1 hypothetical protein -

Sequence

Protein


Download         Length: 142 a.a.        Molecular weight: 15754.52 Da        Isoelectric Point: 7.9972

>NTDB_id=854044 QY868_RS08770 WP_005917281.1 1802166..1802594(-) (ssb) [Pediococcus acidilactici strain A1602]
MINRTVLIGRLTKDVELRHTAKGDAVASFTVAVNRQFTNSQGEREVDFINCVMWRKAAENFAKYTQKGSLVGIEGRIQTR
SYENQQGQRVYVTEVVAENFSLLDSKPKGNQQNNARQASTPGDPFANGGQSIDIGDDSQLPF

Nucleotide


Download         Length: 429 bp        

>NTDB_id=854044 QY868_RS08770 WP_005917281.1 1802166..1802594(-) (ssb) [Pediococcus acidilactici strain A1602]
ATGATTAATCGAACAGTACTAATAGGACGCCTAACTAAAGATGTTGAGCTTCGCCACACGGCTAAAGGCGATGCGGTAGC
TAGTTTTACTGTGGCAGTTAACCGACAGTTTACCAACTCACAGGGTGAACGCGAAGTGGATTTCATCAACTGTGTAATGT
GGCGTAAGGCAGCAGAAAACTTTGCCAAGTACACACAAAAAGGTTCGTTGGTAGGCATTGAGGGTCGAATTCAAACTCGT
TCCTACGAGAATCAACAAGGACAACGAGTGTACGTTACCGAAGTTGTTGCGGAAAACTTCTCGTTGCTGGATTCGAAACC
GAAAGGCAACCAGCAAAATAACGCACGGCAAGCATCAACGCCGGGAGATCCATTCGCTAATGGCGGACAATCAATTGATA
TTGGTGACGATAGTCAACTGCCTTTCTAA

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

56.725

100

0.683
  ssbA Bacillus subtilis subsp. subtilis str. 168

53.179

100

0.648
  ssbB Bacillus subtilis subsp. subtilis str. 168

60.185

76.056

0.458
  ssbB/cilA Streptococcus mitis NCTC 12261

39.583

100

0.401
  ssbB Streptococcus sobrinus strain NIDR 6715-7

39.583

100

0.401
  ssbB/cilA Streptococcus pneumoniae TIGR4

39.583

100

0.401
  ssbB/cilA Streptococcus mitis SK321

38.889

100

0.394
  ssbB/cilA Streptococcus pneumoniae Rx1

38.889

100

0.394
  ssbB/cilA Streptococcus pneumoniae D39

38.889

100

0.394
  ssbB/cilA Streptococcus pneumoniae R6

38.889

100

0.394