Detailed information    

insolico Bioinformatically predicted

Overview

Name   ssb   Type   Machinery gene
Locus tag   N5056_RS17725 Genome accession   NZ_CP104757
Coordinates   3962684..3963214 (+) Length   176 a.a.
NCBI ID   WP_180778595.1    Uniprot ID   -
Organism   Pectobacterium aroidearum strain QJ021     
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 3956025..3975388 3962684..3963214 within 0


Gene organization within MGE regions


Location: 3956025..3975388
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  N5056_RS17690 (N5056_17690) - 3956025..3956432 (-) 408 WP_181829264.1 DUF1240 domain-containing protein -
  N5056_RS17695 (N5056_17695) - 3956481..3956888 (-) 408 WP_181829265.1 DUF1240 domain-containing protein -
  N5056_RS17700 (N5056_17700) - 3956945..3957350 (-) 406 Protein_3466 DUF1240 domain-containing protein -
  N5056_RS17705 (N5056_17705) - 3957399..3957800 (-) 402 WP_181829266.1 DUF1240 domain-containing protein -
  N5056_RS17710 (N5056_17710) - 3957793..3958659 (-) 867 WP_180778598.1 hypothetical protein -
  N5056_RS17715 (N5056_17715) - 3959161..3959580 (-) 420 WP_015841647.1 secondary thiamine-phosphate synthase enzyme YjbQ -
  N5056_RS17720 (N5056_17720) uvrA 3959597..3962431 (-) 2835 WP_181829267.1 excinuclease ABC subunit UvrA -
  N5056_RS17725 (N5056_17725) ssb 3962684..3963214 (+) 531 WP_180778595.1 single-stranded DNA-binding protein SSB1 Machinery gene
  N5056_RS17730 (N5056_17730) - 3963373..3964566 (+) 1194 WP_161546422.1 site-specific integrase -
  N5056_RS17735 (N5056_17735) - 3964566..3966125 (+) 1560 WP_181829268.1 site-specific integrase -
  N5056_RS17740 (N5056_17740) - 3966127..3968142 (+) 2016 WP_181829269.1 integrase -
  N5056_RS17745 (N5056_17745) - 3968144..3968563 (+) 420 WP_052902952.1 hypothetical protein -
  N5056_RS17750 (N5056_17750) - 3969003..3970283 (-) 1281 WP_181829270.1 hypothetical protein -
  N5056_RS17755 (N5056_17755) - 3970716..3971669 (+) 954 WP_181829271.1 hypothetical protein -
  N5056_RS17760 (N5056_17760) - 3971673..3971879 (+) 207 WP_181829272.1 hypothetical protein -
  N5056_RS17765 (N5056_17765) - 3972116..3972994 (+) 879 WP_181838239.1 DUF2971 domain-containing protein -
  N5056_RS17770 (N5056_17770) - 3973135..3973554 (+) 420 WP_181829274.1 hypothetical protein -
  N5056_RS17775 (N5056_17775) - 3974513..3974836 (+) 324 WP_181829275.1 hypothetical protein -

Sequence

Protein


Download         Length: 176 a.a.        Molecular weight: 18799.79 Da        Isoelectric Point: 5.2456

>NTDB_id=732055 N5056_RS17725 WP_180778595.1 3962684..3963214(+) (ssb) [Pectobacterium aroidearum strain QJ021]
MASRGVNKVILVGNLGQDPEVRYMPNGGAVANITLATSESWRDKQTGEQKEKTEWHRVVLFGKLAEVAGEYLRKGSQVYI
EGALQTRKWADQAGVERYTTEVVVNVGGTMQMLGGRQGGGAPAGGGQQQGGWGQPQQPQGGNQFSGGAQAQQRPAQNSAP
AQSNEPPMDFDDDIPF

Nucleotide


Download         Length: 531 bp        

>NTDB_id=732055 N5056_RS17725 WP_180778595.1 3962684..3963214(+) (ssb) [Pectobacterium aroidearum strain QJ021]
ATGGCCAGCAGAGGCGTTAATAAAGTGATTCTTGTCGGGAATCTGGGTCAAGACCCGGAAGTCCGCTATATGCCGAATGG
TGGTGCAGTTGCCAACATCACACTGGCAACTTCCGAATCCTGGCGTGATAAACAGACCGGCGAACAGAAAGAGAAGACCG
AGTGGCACCGTGTGGTGCTGTTCGGCAAACTAGCTGAAGTCGCGGGCGAATATCTGCGCAAAGGCTCTCAGGTTTACATC
GAAGGCGCACTGCAAACCCGTAAATGGGCCGATCAGGCTGGCGTAGAGCGCTACACCACCGAAGTCGTCGTTAACGTCGG
CGGCACCATGCAGATGTTAGGCGGACGTCAGGGCGGCGGCGCACCAGCAGGTGGCGGCCAGCAGCAAGGCGGTTGGGGAC
AACCTCAGCAGCCACAGGGCGGCAACCAGTTCAGCGGCGGCGCACAAGCTCAGCAGCGCCCAGCCCAAAACAGCGCTCCA
GCGCAAAGCAACGAACCGCCAATGGATTTCGACGACGATATCCCGTTCTAG

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

72.727

100

0.773
  ssb Glaesserella parasuis strain SC1401

57.838

100

0.608
  ssb Neisseria meningitidis MC58

46.893

100

0.472
  ssb Neisseria gonorrhoeae MS11

46.893

100

0.472
  ssbA Bacillus subtilis subsp. subtilis str. 168

36.723

100

0.369