Detailed information    

insolico Bioinformatically predicted

Overview

Name   ssb   Type   Machinery gene
Locus tag   ABOA60_RS04375 Genome accession   NZ_CP158177
Coordinates   902357..902803 (+) Length   148 a.a.
NCBI ID   WP_159225216.1    Uniprot ID   -
Organism   Pediococcus acidilactici strain PA_ZFRFD     
Function   ssDNA binding (predicted from homology)   
DNA processing

Genomic Context

Location: 897357..907803
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  ABOA60_RS04330 (ABOA60_04325) - 897443..897658 (+) 216 WP_159225220.1 hypothetical protein -
  ABOA60_RS04335 (ABOA60_04330) - 897743..898207 (+) 465 WP_235019097.1 helix-turn-helix transcriptional regulator -
  ABOA60_RS04340 (ABOA60_04335) - 898208..898489 (+) 282 WP_008840858.1 hypothetical protein -
  ABOA60_RS04345 (ABOA60_04340) - 898491..898634 (+) 144 WP_158002712.1 hypothetical protein -
  ABOA60_RS04350 (ABOA60_04345) - 898727..899620 (+) 894 WP_159225219.1 DUF1351 domain-containing protein -
  ABOA60_RS04355 (ABOA60_04350) - 899622..900443 (+) 822 WP_159225218.1 ERF family protein -
  ABOA60_RS04360 (ABOA60_04355) - 900436..901275 (+) 840 WP_350303122.1 helix-turn-helix domain-containing protein -
  ABOA60_RS04365 (ABOA60_04360) - 901280..902002 (+) 723 WP_128472034.1 putative HNHc nuclease -
  ABOA60_RS04370 (ABOA60_04365) - 901947..902354 (+) 408 WP_032540532.1 hypothetical protein -
  ABOA60_RS04375 (ABOA60_04370) ssb 902357..902803 (+) 447 WP_159225216.1 single-stranded DNA-binding protein Machinery gene
  ABOA60_RS04380 (ABOA60_04375) - 902814..903011 (+) 198 WP_159225215.1 hypothetical protein -
  ABOA60_RS04385 (ABOA60_04380) - 903004..903246 (+) 243 WP_159225214.1 hypothetical protein -
  ABOA60_RS04390 (ABOA60_04385) - 903401..903646 (+) 246 WP_159225213.1 hypothetical protein -
  ABOA60_RS04395 (ABOA60_04390) - 903843..904274 (+) 432 WP_065124799.1 ArpU family phage packaging/lysis transcriptional regulator -
  ABOA60_RS04405 (ABOA60_04400) - 904617..905237 (+) 621 WP_159225212.1 hypothetical protein -
  ABOA60_RS04410 (ABOA60_04405) - 905339..905503 (+) 165 WP_195304742.1 hypothetical protein -
  ABOA60_RS04415 (ABOA60_04410) - 905508..905759 (+) 252 WP_159225211.1 hypothetical protein -
  ABOA60_RS04420 (ABOA60_04415) - 905766..906455 (+) 690 WP_235019096.1 terminase -
  ABOA60_RS04425 (ABOA60_04420) - 906442..907749 (+) 1308 WP_159225210.1 PBSX family phage terminase large subunit -

Sequence

Protein


Download         Length: 148 a.a.        Molecular weight: 16617.28 Da        Isoelectric Point: 5.1660

>NTDB_id=1010087 ABOA60_RS04375 WP_159225216.1 902357..902803(+) (ssb) [Pediococcus acidilactici strain PA_ZFRFD]
MINRTVLVGRLTKDPEIRYTQSGMAVANFTMAVNRQFTNANGEREADFISCIVWRKAAENFCNFTHKGSLVGIDGRIQTS
SYEKEGQRVYATQVVVDSFSLLEPKQQSQQRGQQSNASNALHDNFGQPANNYSQNNDDFGIDDNDLPF

Nucleotide


Download         Length: 447 bp        

>NTDB_id=1010087 ABOA60_RS04375 WP_159225216.1 902357..902803(+) (ssb) [Pediococcus acidilactici strain PA_ZFRFD]
ATGATTAATCGAACCGTATTAGTCGGTCGCCTAACCAAGGATCCAGAAATCCGTTACACCCAATCAGGGATGGCGGTGGC
CAACTTTACTATGGCCGTGAACCGGCAGTTCACCAACGCTAATGGCGAGCGAGAAGCGGACTTTATCAGCTGTATTGTCT
GGAGAAAGGCGGCCGAAAACTTCTGTAATTTTACCCACAAAGGATCATTGGTCGGGATTGATGGTCGGATTCAAACTAGT
TCGTACGAAAAGGAAGGTCAACGCGTGTATGCTACACAAGTGGTTGTAGATAGTTTCTCATTGTTAGAACCGAAACAGCA
GAGCCAACAACGTGGCCAGCAATCTAACGCTAGCAATGCTTTGCATGACAATTTTGGACAGCCTGCTAACAATTACAGCC
AGAATAATGACGATTTCGGCATTGATGATAATGATTTGCCGTTTTAG

Domains

Predicted by InterProScan.

Single-strand binding protein family (SSB)

(2-101)


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

55.233

100

0.642
  ssbA Bacillus subtilis subsp. subtilis str. 168

50.581

100

0.588
  ssbB Bacillus subtilis subsp. subtilis str. 168

55.455

74.324

0.412
  ssbB Streptococcus sobrinus strain NIDR 6715-7

39.865

100

0.399
  ssbB/cilA Streptococcus pneumoniae TIGR4

37.838

100

0.378
  ssbB/cilA Streptococcus mitis NCTC 12261

37.838

100

0.378
  ssbB/cilA Streptococcus pneumoniae Rx1

37.162

100

0.372
  ssbB/cilA Streptococcus pneumoniae D39

37.162

100

0.372
  ssbB/cilA Streptococcus pneumoniae R6

37.162

100

0.372
  ssbB/cilA Streptococcus mitis SK321

37.162

100

0.372

Multiple sequence alignment