Detailed information    

insolico Bioinformatically predicted

Overview

Name   ssb   Type   Machinery gene
Locus tag   ABHF04_RS03570 Genome accession   NZ_CP156997
Coordinates   696421..696867 (-) Length   148 a.a.
NCBI ID   WP_347921267.1    Uniprot ID   -
Organism   Pediococcus acidilactici strain 13_7     
Function   ssDNA binding (predicted from homology)   
DNA processing

Genomic Context

Location: 691421..701867
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  ABHF04_RS03520 (ABHF04_03520) - 692325..693014 (-) 690 WP_347921253.1 terminase -
  ABHF04_RS03525 (ABHF04_03525) - 693079..693816 (-) 738 WP_347921256.1 hypothetical protein -
  ABHF04_RS03530 (ABHF04_03530) - 693876..694040 (-) 165 WP_317052220.1 hypothetical protein -
  ABHF04_RS03545 (ABHF04_03545) - 694631..695068 (-) 438 WP_159208620.1 ArpU family phage packaging/lysis transcriptional regulator -
  ABHF04_RS03550 (ABHF04_03550) - 695288..695524 (-) 237 WP_347921259.1 hypothetical protein -
  ABHF04_RS03555 (ABHF04_03555) - 695664..695822 (-) 159 WP_347921261.1 hypothetical protein -
  ABHF04_RS03560 (ABHF04_03560) - 695842..696066 (-) 225 WP_347921264.1 hypothetical protein -
  ABHF04_RS03565 (ABHF04_03565) - 696063..696410 (-) 348 WP_152688845.1 DUF1642 domain-containing protein -
  ABHF04_RS03570 (ABHF04_03570) ssb 696421..696867 (-) 447 WP_347921267.1 single-stranded DNA-binding protein Machinery gene
  ABHF04_RS03575 (ABHF04_03575) - 696870..697277 (-) 408 WP_347921269.1 hypothetical protein -
  ABHF04_RS03580 (ABHF04_03580) - 697222..697944 (-) 723 WP_347921271.1 putative HNHc nuclease -
  ABHF04_RS03585 (ABHF04_03585) - 697949..698827 (-) 879 WP_159219284.1 helix-turn-helix domain-containing protein -
  ABHF04_RS03590 (ABHF04_03590) - 698820..699656 (-) 837 WP_347921274.1 ERF family protein -
  ABHF04_RS03595 (ABHF04_03595) - 699659..700552 (-) 894 WP_347921276.1 DUF1351 domain-containing protein -
  ABHF04_RS03600 (ABHF04_03600) - 700645..700788 (-) 144 WP_159208631.1 hypothetical protein -
  ABHF04_RS03605 (ABHF04_03605) - 700799..701071 (-) 273 WP_128472030.1 hypothetical protein -
  ABHF04_RS03610 (ABHF04_03610) - 701053..701520 (-) 468 WP_285110384.1 helix-turn-helix transcriptional regulator -
  ABHF04_RS03615 (ABHF04_03615) - 701602..701817 (-) 216 WP_128472028.1 hypothetical protein -

Sequence

Protein


Download         Length: 148 a.a.        Molecular weight: 16609.31 Da        Isoelectric Point: 4.8667

>NTDB_id=1003790 ABHF04_RS03570 WP_347921267.1 696421..696867(-) (ssb) [Pediococcus acidilactici strain 13_7]
MINRTVLVGRLTKDPEIRYTQSGMAVANFTMAVNRQFTNANGEREADFISCIVWRKAAENFCNFTHKGSLVGIDGRIQTS
TYEKEGQRVYSTQVVVDSFSLLEPKQQSQQCGQQSVASDALHDNFGQPTNNYSQNNNDFGIDDNDLPF

Nucleotide


Download         Length: 447 bp        

>NTDB_id=1003790 ABHF04_RS03570 WP_347921267.1 696421..696867(-) (ssb) [Pediococcus acidilactici strain 13_7]
ATGATTAATCGAACCGTATTAGTCGGACGCCTAACCAAGGATCCAGAAATCCGTTACACCCAATCAGGGATGGCGGTGGC
CAACTTTACCATGGCTGTGAACCGACAGTTCACCAACGCTAATGGCGAGCGAGAAGCGGACTTTATCAGCTGTATTGTCT
GGAGAAAGGCGGCCGAAAACTTCTGTAATTTTACCCACAAAGGATCATTGGTCGGGATTGACGGCCGGATCCAAACGAGT
ACGTACGAAAAGGAAGGTCAGCGTGTTTACTCAACACAAGTGGTCGTAGATAGTTTCTCGTTGCTTGAGCCGAAACAGCA
AAGCCAACAGTGTGGCCAGCAATCCGTCGCTAGTGATGCTTTGCATGACAATTTCGGACAGCCTACTAACAATTACAGCC
AAAATAATAACGATTTCGGCATTGACGATAACGATTTGCCGTTTTAG

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

53.179

100

0.622
  ssbA Bacillus subtilis subsp. subtilis str. 168

65.094

71.622

0.466
  ssbB Bacillus subtilis subsp. subtilis str. 168

54.545

74.324

0.405
  ssbB Streptococcus sobrinus strain NIDR 6715-7

39.189

100

0.392
  ssbB/cilA Streptococcus pneumoniae TIGR4

37.838

100

0.378
  ssbB/cilA Streptococcus mitis NCTC 12261

37.838

100

0.378
  ssb Vibrio cholerae strain A1552

32.558

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

36.486

100

0.365

Multiple sequence alignment