Detailed information    

insolico Bioinformatically predicted

Overview

Name   ssb   Type   Machinery gene
Locus tag   D6T62_RS22170 Genome accession   NZ_CP032513
Coordinates   4253075..4253611 (+) Length   178 a.a.
NCBI ID   WP_000168302.1    Uniprot ID   -
Organism   Shigella flexneri strain SFL1520     
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)
IScluster/Tn 4253719..4256339 4253075..4253611 flank 108


Gene organization within MGE regions


Location: 4253075..4256339
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  D6T62_RS22170 (D6T62_22565) ssb 4253075..4253611 (+) 537 WP_000168302.1 single-stranded DNA-binding protein SSB1 Machinery gene
  D6T62_RS22180 (D6T62_22575) - 4254486..4254767 (-) 282 WP_001295689.1 YjcB family protein -
  D6T62_RS22185 (D6T62_22580) - 4255196..4255585 (+) 390 Protein_4254 CSS-motif domain-containing protein -
  D6T62_RS22190 (D6T62_22585) - 4255642..4256339 (+) 698 WP_223368647.1 IS1 family transposase -

Sequence

Protein


Download         Length: 178 a.a.        Molecular weight: 18975.04 Da        Isoelectric Point: 5.9151

>NTDB_id=316597 D6T62_RS22170 WP_000168302.1 4253075..4253611(+) (ssb) [Shigella flexneri strain SFL1520]
MASRGVNKVILVGNLGQDPEVRYMPNGGAVANITLATSESWRDKATGEMKEQTEWHRVVLFGKLAEVASEYLRKGSQVYI
EGQLRTRKWTDQSGQDRYTTEVVVNVGGTMQMLGGRQGGGAPAGGNIGGGQPQGGWGQPQQPQGGNKFSGGAQSRPQQSA
PAAPSNEPPMDFDDDIPF

Nucleotide


Download         Length: 537 bp        

>NTDB_id=316597 D6T62_RS22170 WP_000168302.1 4253075..4253611(+) (ssb) [Shigella flexneri strain SFL1520]
ATGGCCAGCAGAGGCGTAAACAAGGTTATTCTCGTTGGTAATCTGGGTCAGGACCCGGAAGTACGCTACATGCCAAATGG
TGGCGCAGTTGCCAACATTACGCTGGCTACTTCCGAATCCTGGCGTGATAAAGCGACCGGCGAGATGAAAGAACAGACTG
AATGGCACCGCGTTGTGCTGTTCGGCAAACTGGCAGAAGTGGCGAGCGAATATCTGCGTAAAGGTTCTCAGGTTTATATC
GAAGGTCAGCTGCGTACCCGTAAATGGACCGATCAATCCGGTCAGGATCGCTACACCACAGAAGTCGTGGTGAACGTTGG
CGGCACCATGCAGATGCTGGGTGGTCGTCAGGGTGGTGGCGCTCCGGCAGGTGGCAATATCGGTGGTGGTCAGCCGCAGG
GCGGTTGGGGTCAGCCTCAGCAGCCGCAGGGTGGCAATAAGTTCAGCGGCGGCGCGCAGTCTCGCCCGCAGCAGTCCGCT
CCGGCAGCGCCGTCTAACGAGCCGCCGATGGACTTTGATGATGACATTCCGTTCTGA

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

73.514

100

0.764
  ssb Glaesserella parasuis strain SC1401

57.923

100

0.596
  ssb Neisseria meningitidis MC58

47.514

100

0.483
  ssb Neisseria gonorrhoeae MS11

47.514

100

0.483

Multiple sequence alignment