Detailed information    

insolico Bioinformatically predicted

Overview

Name   ssb   Type   Machinery gene
Locus tag   AOT98_RS04035 Genome accession   NZ_CP012735
Coordinates   608913..609449 (+) Length   178 a.a.
NCBI ID   WP_000168305.1    Uniprot ID   A0A9P2PPK2
Organism   Shigella flexneri 1a strain 0228     
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)
Prophage 608913..622009 608913..609449 within 0
IS/Tn 609557..610060 608913..609449 flank 108


Gene organization within MGE regions


Location: 608913..622009
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  AOT98_RS04035 (AOT98_03205) ssb 608913..609449 (+) 537 WP_000168305.1 single-stranded DNA-binding protein SSB1 Machinery gene
  AOT98_RS30070 (AOT98_03220) - 610304..610402 (+) 99 Protein_595 hypothetical protein -
  AOT98_RS04055 (AOT98_03225) mdtN 610421..611452 (+) 1032 WP_000446384.1 multidrug efflux transporter periplasmic adaptor subunit MdtN -
  AOT98_RS04060 (AOT98_03230) mdtO 611452..613494 (+) 2043 WP_001275151.1 multidrug efflux transporter permease subunit MdtO -
  AOT98_RS04065 (AOT98_03235) mdtP 613491..614564 (+) 1074 Protein_598 multidrug efflux transporter outer membrane subunit MdtP -
  AOT98_RS04070 (AOT98_03240) - 614770..616035 (+) 1266 WP_033801190.1 integrase domain-containing protein -
  AOT98_RS04075 (AOT98_03245) - 616040..616936 (+) 897 WP_061440245.1 hypothetical protein -
  AOT98_RS04080 (AOT98_03250) - 617074..617277 (+) 204 WP_021574032.1 helix-turn-helix transcriptional regulator -
  AOT98_RS04085 (AOT98_03255) - 617452..617997 (+) 546 WP_094186063.1 host cell division inhibitor Icd-like protein -
  AOT98_RS04090 (AOT98_03260) - 617990..618454 (+) 465 WP_024228216.1 host cell division inhibitor Icd-like protein -
  AOT98_RS04095 (AOT98_03265) - 618447..618761 (+) 315 WP_024228217.1 hypothetical protein -
  AOT98_RS04100 (AOT98_03270) - 618836..619135 (+) 300 WP_024228219.1 DUF4222 domain-containing protein -
  AOT98_RS04105 (AOT98_03275) - 619132..620532 (+) 1401 WP_024228220.1 helicase RepA family protein -
  AOT98_RS04110 (AOT98_03280) - 620795..621205 (+) 411 WP_024228222.1 single-stranded DNA-binding protein -
  AOT98_RS04115 (AOT98_03285) - 621216..621488 (+) 273 WP_024228223.1 PerC family transcriptional regulator -
  AOT98_RS04120 (AOT98_03290) - 621602..622009 (+) 408 WP_029786972.1 Mor transcription activator family protein -

Sequence

Protein


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

>NTDB_id=157376 AOT98_RS04035 WP_000168305.1 608913..609449(+) (ssb) [Shigella flexneri 1a strain 0228]
MASRGVNKVILVGNLGQDPEVRYMPNGGAVANITLATSESWRDKATGEMKEQTEWHRVVLFGKLAEVASEYLRKGSQVYI
EGQLRTRKWTDQSGQDRYTTEVVVNVGGTMQMLGGRQGGGAPAGGNIGGGQPQGGWGQPQQPQGGNQFSGGAQSRPQQSA
PAAPSNEPPMDFDDDIPF

Nucleotide


Download         Length: 537 bp        

>NTDB_id=157376 AOT98_RS04035 WP_000168305.1 608913..609449(+) (ssb) [Shigella flexneri 1a strain 0228]
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