Detailed information    

insolico Bioinformatically predicted

Overview

Name   ssb   Type   Machinery gene
Locus tag   GMW39_RS23780 Genome accession   NZ_CP046376
Coordinates   5097020..5097562 (-) Length   180 a.a.
NCBI ID   WP_014701314.1    Uniprot ID   A0AAE9SYY7
Organism   Pectobacterium parmentieri strain HC     
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)
Genomic island 5083005..5096861 5097020..5097562 flank 159


Gene organization within MGE regions


Location: 5083005..5097562
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  GMW39_RS23725 (GMW39_23800) - 5083005..5083616 (-) 612 WP_161546414.1 TIR domain-containing protein -
  GMW39_RS23730 (GMW39_23805) - 5083633..5085069 (-) 1437 WP_161546415.1 SIR2 family protein -
  GMW39_RS23735 (GMW39_23810) - 5085111..5086268 (-) 1158 WP_161546416.1 TIR domain-containing protein -
  GMW39_RS23740 (GMW39_23815) - 5087651..5087956 (-) 306 WP_161546417.1 hypothetical protein -
  GMW39_RS23745 (GMW39_23820) - 5088984..5089262 (+) 279 WP_161546418.1 hypothetical protein -
  GMW39_RS23750 (GMW39_23825) - 5089239..5090012 (-) 774 WP_161546419.1 hypothetical protein -
  GMW39_RS23755 (GMW39_23830) - 5090024..5091055 (-) 1032 WP_161546420.1 hypothetical protein -
  GMW39_RS23760 (GMW39_23835) - 5091670..5092089 (-) 420 WP_052902952.1 hypothetical protein -
  GMW39_RS23765 (GMW39_23840) - 5092091..5094106 (-) 2016 WP_161546421.1 integrase -
  GMW39_RS23770 (GMW39_23845) - 5094108..5095145 (-) 1038 WP_237613315.1 site-specific integrase -
  GMW39_RS24975 - 5095132..5095668 (-) 537 WP_237613316.1 hypothetical protein -
  GMW39_RS23775 (GMW39_23850) - 5095668..5096861 (-) 1194 WP_161546422.1 tyrosine-type recombinase/integrase -
  GMW39_RS23780 (GMW39_23855) ssb 5097020..5097562 (-) 543 WP_014701314.1 single-stranded DNA-binding protein SSB1 Machinery gene

Sequence

Protein


Download         Length: 180 a.a.        Molecular weight: 19099.08 Da        Isoelectric Point: 5.2456

>NTDB_id=403605 GMW39_RS23780 WP_014701314.1 5097020..5097562(-) (ssb) [Pectobacterium parmentieri strain HC]
MASRGVNKVILVGNLGQDPEVRYMPNGGAVANITLATSESWRDKQTGEQKEKTEWHRVVLFGKLAEVAGEYLRKGSQVYI
EGALQTRKWADQAGVERYTTEVVVNVGGTMQMLGGRQGGGAPAGGNAGGGQQQGGWGQPQQPQGGNQFSGGAQAQQRPAQ
NSAPAQSNEPPMDFDDDIPF

Nucleotide


Download         Length: 543 bp        

>NTDB_id=403605 GMW39_RS23780 WP_014701314.1 5097020..5097562(-) (ssb) [Pectobacterium parmentieri strain HC]
ATGGCCAGCAGAGGCGTTAATAAAGTGATTCTTGTCGGGAATCTGGGTCAAGACCCGGAAGTCCGCTATATGCCGAATGG
TGGTGCAGTTGCCAACATCACGCTGGCTACGTCGGAAAGCTGGCGTGACAAGCAAACCGGTGAGCAGAAAGAGAAGACCG
AATGGCACCGTGTGGTTCTGTTCGGCAAACTGGCAGAAGTTGCAGGCGAATACCTGCGCAAAGGCTCTCAGGTTTATATC
GAAGGCGCACTGCAAACCCGTAAATGGGCCGATCAGGCTGGCGTAGAGCGCTACACCACCGAAGTCGTTGTTAACGTCGG
CGGCACCATGCAGATGCTGGGTGGACGACAGGGCGGCGGCGCACCAGCAGGCGGTAATGCAGGTGGCGGTCAGCAGCAAG
GCGGTTGGGGTCAACCTCAGCAGCCGCAGGGTGGCAACCAATTCAGCGGCGGTGCGCAAGCTCAGCAGCGTCCGGCACAG
AACAGCGCGCCCGCACAAAGTAACGAACCGCCAATGGATTTCGACGACGACATTCCGTTCTAG

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

72.193

100

0.75
  ssb Glaesserella parasuis strain SC1401

57.297

100

0.589
  ssb Neisseria meningitidis MC58

46.369

99.444

0.461
  ssb Neisseria gonorrhoeae MS11

46.369

99.444

0.461

Multiple sequence alignment