Detailed information    

insolico Bioinformatically predicted

Overview

Name   ssb   Type   Machinery gene
Locus tag   JMV05_RS20855 Genome accession   NZ_LR878365
Coordinates   4104566..4105102 (-) Length   178 a.a.
NCBI ID   WP_000168305.1    Uniprot ID   A0A9P2PPK2
Organism   Shigella flexneri 3a isolate 83     
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 4101838..4104458 4104566..4105102 flank 108


Gene organization within MGE regions


Location: 4101838..4105102
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  JMV05_RS20840 - 4102592..4102981 (-) 390 Protein_4085 CSS-motif domain-containing protein -
  JMV05_RS20845 - 4103410..4103691 (+) 282 WP_001295689.1 YjcB family protein -
  JMV05_RS20850 - 4103761..4104458 (+) 698 WP_223368647.1 IS1 family transposase -
  JMV05_RS20855 ssb 4104566..4105102 (-) 537 WP_000168305.1 single-stranded DNA-binding protein SSB1 Machinery gene

Sequence

Protein


Download         Length: 178 a.a.        Molecular weight: 18975.00 Da        Isoelectric Point: 5.2358

>NTDB_id=1132597 JMV05_RS20855 WP_000168305.1 4104566..4105102(-) (ssb) [Shigella flexneri 3a isolate 83]
MASRGVNKVILVGNLGQDPEVRYMPNGGAVANITLATSESWRDKATGEMKEQTEWHRVVLFGKLAEVASEYLRKGSQVYI
EGQLRTRKWTDQSGQDRYTTEVVVNVGGTMQMLGGRQGGGAPAGGNIGGGQPQGGWGQPQQPQGGNQFSGGAQSRPQQSA
PAAPSNEPPMDFDDDIPF

Nucleotide


Download         Length: 537 bp        

>NTDB_id=1132597 JMV05_RS20855 WP_000168305.1 4104566..4105102(-) (ssb) [Shigella flexneri 3a isolate 83]
ATGGCCAGCAGAGGCGTAAACAAGGTTATTCTCGTTGGTAATCTGGGTCAGGACCCGGAAGTACGCTACATGCCAAATGG
TGGCGCAGTTGCCAACATTACGCTGGCTACTTCCGAATCCTGGCGTGATAAAGCGACCGGCGAGATGAAAGAACAGACTG
AATGGCACCGCGTTGTGCTGTTCGGCAAACTGGCAGAAGTGGCGAGCGAATATCTGCGTAAAGGTTCTCAGGTTTATATC
GAAGGTCAGCTGCGTACCCGTAAATGGACCGATCAATCCGGTCAGGATCGCTACACCACAGAAGTCGTGGTGAACGTTGG
CGGCACCATGCAGATGCTGGGTGGTCGTCAGGGTGGTGGCGCTCCGGCAGGTGGCAATATCGGTGGTGGTCAGCCGCAGG
GCGGTTGGGGTCAGCCTCAGCAGCCGCAGGGTGGCAATCAGTTCAGCGGCGGCGCGCAGTCTCGCCCGCAGCAGTCCGCT
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

74.444

100

0.753
  ssb Glaesserella parasuis strain SC1401

57.923

100

0.596
  ssb Neisseria meningitidis MC58

48.066

100

0.489
  ssb Neisseria gonorrhoeae MS11

48.066

100

0.489

Multiple sequence alignment