Detailed information    

insolico Bioinformatically predicted

Overview

Name   ssb   Type   Machinery gene
Locus tag   C5B80_RS19670 Genome accession   NZ_CP026795
Coordinates   3687199..3687714 (-) Length   171 a.a.
NCBI ID   WP_000168307.1    Uniprot ID   -
Organism   Shigella boydii strain ATCC BAA-1247     
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 3685805..3686308 3687199..3687714 flank 891


Gene organization within MGE regions


Location: 3685805..3687714
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  C5B80_RS27300 - 3686324..3686389 (-) 66 Protein_3812 hypothetical protein -
  C5B80_RS19665 - 3686819..3687100 (+) 282 WP_001295689.1 YjcB family protein -
  C5B80_RS19670 ssb 3687199..3687714 (-) 516 WP_000168307.1 single-stranded DNA-binding protein SSB1 Machinery gene

Sequence

Protein


Download         Length: 171 a.a.        Molecular weight: 18264.25 Da        Isoelectric Point: 5.2358

>NTDB_id=272604 C5B80_RS19670 WP_000168307.1 3687199..3687714(-) (ssb) [Shigella boydii strain ATCC BAA-1247]
MASRGVNKVILVGNLGQDPEVRYMPNGGAVANITLATSESWRDKATGEMKEQTEWHRVVLFGKLAEVASEYLRKGSQVYI
EGQLRTRKWTDQSGQDRYTTEVVVNVGGTMQMLGGRQGGGAPAGGNIGGGQPQQPQGGNQFSGGAQSRPQQSAPAAPSNE
PPMDFDDDIPF

Nucleotide


Download         Length: 516 bp        

>NTDB_id=272604 C5B80_RS19670 WP_000168307.1 3687199..3687714(-) (ssb) [Shigella boydii strain ATCC BAA-1247]
ATGGCCAGCAGAGGCGTAAACAAGGTTATTCTCGTTGGTAATCTGGGTCAGGACCCGGAAGTACGCTACATGCCAAATGG
TGGCGCAGTTGCCAACATTACGCTGGCTACTTCCGAATCCTGGCGTGATAAAGCGACCGGCGAGATGAAAGAACAGACTG
AATGGCACCGCGTTGTGCTGTTCGGCAAACTGGCAGAAGTGGCCAGCGAATATCTGCGTAAAGGTTCTCAGGTTTATATC
GAAGGTCAGCTGCGTACCCGTAAATGGACCGATCAATCCGGTCAGGATCGCTACACCACAGAAGTCGTGGTGAACGTTGG
CGGCACCATGCAGATGCTGGGTGGTCGTCAGGGTGGTGGCGCTCCGGCAGGTGGTAATATCGGTGGTGGTCAGCCTCAGC
AGCCGCAGGGTGGCAATCAGTTCAGCGGCGGCGCGCAGTCTCGCCCGCAGCAGTCCGCTCCGGCAGCGCCGTCTAACGAG
CCGCCGATGGACTTTGATGATGACATTCCGTTCTGA

Domains

Predicted by InterproScan.

Single-strand binding protein family (SSB)

(6-112)


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 Vibrio cholerae strain A1552

73.481

100

0.778
  ssb Glaesserella parasuis strain SC1401

58.242

100

0.62
  ssb Neisseria meningitidis MC58

48.588

100

0.503
  ssb Neisseria gonorrhoeae MS11

48.588

100

0.503
  ssbA Bacillus subtilis subsp. subtilis str. 168

35.556

100

0.374

Multiple sequence alignment