Detailed information    

insolico Bioinformatically predicted

Overview

Name   ssbA   Type   Machinery gene
Locus tag   PQ478_RS21125 Genome accession   NZ_CP117835
Coordinates   4062769..4063260 (-) Length   163 a.a.
NCBI ID   WP_289235492.1    Uniprot ID   -
Organism   Alkalihalophilus pseudofirmus strain DSM 8715     
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)
IS/Tn 4064023..4065483 4062769..4063260 flank 763


Gene organization within MGE regions


Location: 4062769..4065483
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  PQ478_RS21125 (PQ478_21125) ssbA 4062769..4063260 (-) 492 WP_289235492.1 single-stranded DNA-binding protein Machinery gene
  PQ478_RS21130 (PQ478_21130) rpsF 4063287..4063574 (-) 288 WP_012960903.1 30S ribosomal protein S6 -
  PQ478_RS21135 (PQ478_21135) - 4064023..4065483 (-) 1461 WP_289235493.1 IS1182 family transposase -

Sequence

Protein


Download         Length: 163 a.a.        Molecular weight: 17843.59 Da        Isoelectric Point: 4.7726

>NTDB_id=787870 PQ478_RS21125 WP_289235492.1 4062769..4063260(-) (ssbA) [Alkalihalophilus pseudofirmus strain DSM 8715]
MLNRVILVGRLTKDPELRYTPSGVAVANFTLAVNRTFSNQQGEREADFINCVVWRKPAENVANYLKKGSLTGVDGRIQTR
SYDNNEGRRVFITEVVAESVQFLEPRGASQGQGNAYAGGGAPTGGNDYSRQNQQPDRQSGGFNDDPFANDGKPIDISDDD
LPF

Nucleotide


Download         Length: 492 bp        

>NTDB_id=787870 PQ478_RS21125 WP_289235492.1 4062769..4063260(-) (ssbA) [Alkalihalophilus pseudofirmus strain DSM 8715]
ATGCTAAACCGTGTCATACTAGTTGGACGTTTAACGAAAGATCCAGAGCTGCGTTATACGCCGAGTGGAGTAGCAGTAGC
GAACTTTACGCTCGCGGTAAACCGTACATTTTCAAACCAGCAAGGAGAGCGCGAAGCAGACTTCATCAATTGTGTTGTTT
GGCGTAAACCTGCTGAGAATGTGGCTAATTACCTTAAAAAAGGCAGCCTGACTGGTGTAGACGGCCGAATCCAAACTAGA
AGCTATGACAACAATGAAGGCCGTCGTGTCTTTATTACAGAAGTTGTAGCGGAAAGTGTGCAATTCCTAGAACCAAGAGG
AGCAAGTCAAGGACAAGGAAATGCGTATGCAGGAGGCGGAGCACCAACTGGTGGAAACGATTATAGCAGGCAGAATCAAC
AACCAGATCGTCAATCTGGCGGATTTAACGATGATCCTTTTGCTAATGATGGCAAACCAATTGACATCTCGGATGACGAT
TTACCATTCTAA

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

67.045

100

0.724
  ssb Latilactobacillus sakei subsp. sakei 23K

53.488

100

0.564
  ssbB Bacillus subtilis subsp. subtilis str. 168

64.151

65.031

0.417
  ssb Neisseria gonorrhoeae MS11

36

100

0.387
  ssb Vibrio cholerae strain A1552

34.659

100

0.374
  ssb Neisseria meningitidis MC58

34.302

100

0.362