Detailed information    

insolico Bioinformatically predicted

Overview

Name   ssb   Type   Machinery gene
Locus tag   L0Y20_RS18705 Genome accession   NZ_CP090596
Coordinates   4134248..4134778 (+) Length   176 a.a.
NCBI ID   WP_180778595.1    Uniprot ID   -
Organism   Pectobacterium aroidearum strain QJ003     
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 4120191..4141198 4134248..4134778 within 0
IScluster/Tn 4135735..4136605 4134248..4134778 flank 957


Gene organization within MGE regions


Location: 4120191..4141198
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  L0Y20_RS18645 (L0Y20_18620) - 4121000..4123636 (+) 2637 WP_256598939.1 ATP-binding protein -
  L0Y20_RS18650 (L0Y20_18625) - 4123887..4124445 (-) 559 Protein_3646 site-specific integrase -
  L0Y20_RS18655 (L0Y20_18630) - 4124793..4125272 (+) 480 WP_015841640.1 Lrp/AsnC family transcriptional regulator -
  L0Y20_RS18660 (L0Y20_18635) - 4125524..4126138 (+) 615 WP_015841641.1 YitT family protein -
  L0Y20_RS18665 (L0Y20_18640) - 4126203..4127396 (+) 1194 WP_180778603.1 amino acid aminotransferase -
  L0Y20_RS18670 (L0Y20_18645) - 4127480..4127983 (+) 504 WP_180778602.1 M48 family metallopeptidase -
  L0Y20_RS18675 (L0Y20_18650) - 4128101..4128580 (+) 480 WP_256598940.1 Hcp family type VI secretion system effector -
  L0Y20_RS18680 (L0Y20_18655) - 4128636..4129037 (-) 402 WP_181845936.1 DUF1240 domain-containing protein -
  L0Y20_RS18685 (L0Y20_18660) - 4129086..4129493 (-) 408 WP_181845937.1 DUF1240 domain-containing protein -
  L0Y20_RS18690 (L0Y20_18665) - 4129486..4130343 (-) 858 WP_181845938.1 hypothetical protein -
  L0Y20_RS18695 (L0Y20_18670) - 4130725..4131144 (-) 420 WP_256598941.1 secondary thiamine-phosphate synthase enzyme YjbQ -
  L0Y20_RS18700 (L0Y20_18675) uvrA 4131161..4133995 (-) 2835 WP_180778596.1 excinuclease ABC subunit UvrA -
  L0Y20_RS18705 (L0Y20_18680) ssb 4134248..4134778 (+) 531 WP_180778595.1 single-stranded DNA-binding protein SSB1 Machinery gene
  L0Y20_RS18710 (L0Y20_18685) - 4135482..4136605 (-) 1124 Protein_3658 IS3 family transposase -
  L0Y20_RS18715 (L0Y20_18690) - 4136700..4138379 (-) 1680 WP_256598942.1 RNA-directed DNA polymerase -
  L0Y20_RS18720 (L0Y20_18695) - 4138447..4139079 (-) 633 WP_256598943.1 hypothetical protein -
  L0Y20_RS18725 (L0Y20_18700) - 4140060..4140518 (+) 459 WP_181845940.1 GNAT family N-acetyltransferase -
  L0Y20_RS18730 (L0Y20_18705) - 4140584..4141198 (-) 615 WP_205947600.1 hypothetical protein -

Sequence

Protein


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

>NTDB_id=643845 L0Y20_RS18705 WP_180778595.1 4134248..4134778(+) (ssb) [Pectobacterium aroidearum strain QJ003]
MASRGVNKVILVGNLGQDPEVRYMPNGGAVANITLATSESWRDKQTGEQKEKTEWHRVVLFGKLAEVAGEYLRKGSQVYI
EGALQTRKWADQAGVERYTTEVVVNVGGTMQMLGGRQGGGAPAGGGQQQGGWGQPQQPQGGNQFSGGAQAQQRPAQNSAP
AQSNEPPMDFDDDIPF

Nucleotide


Download         Length: 531 bp        

>NTDB_id=643845 L0Y20_RS18705 WP_180778595.1 4134248..4134778(+) (ssb) [Pectobacterium aroidearum strain QJ003]
ATGGCCAGCAGAGGCGTTAATAAAGTGATTCTTGTCGGGAATCTGGGTCAAGACCCGGAAGTCCGCTATATGCCGAATGG
TGGTGCAGTTGCCAACATCACACTGGCAACTTCCGAATCCTGGCGTGATAAACAGACCGGCGAACAGAAAGAGAAGACCG
AGTGGCACCGTGTGGTGCTGTTCGGCAAACTGGCTGAAGTCGCGGGCGAATATCTGCGCAAAGGCTCTCAGGTTTACATC
GAAGGCGCACTGCAAACCCGTAAATGGGCCGATCAGGCTGGCGTAGAGCGATACACCACCGAAGTCGTCGTTAACGTCGG
CGGCACCATGCAGATGTTAGGCGGACGTCAGGGCGGCGGCGCACCAGCAGGTGGCGGCCAGCAGCAAGGCGGTTGGGGAC
AACCTCAGCAGCCACAGGGCGGCAACCAATTCAGCGGCGGCGCACAAGCTCAGCAGCGCCCAGCCCAGAATAGCGCTCCA
GCGCAAAGCAACGAACCGCCAATGGATTTCGACGACGATATCCCGTTTTAA

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