Detailed information    

insolico Bioinformatically predicted

Overview

Name   ssb   Type   Machinery gene
Locus tag   HVW68_RS21355 Genome accession   NZ_CP057864
Coordinates   4501432..4501956 (-) Length   174 a.a.
NCBI ID   WP_046671365.1    Uniprot ID   -
Organism   Citrobacter freundii strain RHB12-C19     
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 4490808..4501275 4501432..4501956 flank 157


Gene organization within MGE regions


Location: 4490808..4501956
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  HVW68_RS21315 (HVW68_21315) - 4490808..4492073 (-) 1266 WP_181825826.1 restriction endonuclease subunit S -
  HVW68_RS21320 (HVW68_21320) - 4492066..4495119 (-) 3054 WP_181825827.1 type I restriction endonuclease subunit R -
  HVW68_RS21325 (HVW68_21325) - 4495180..4495383 (-) 204 WP_026027839.1 helix-turn-helix transcriptional regulator -
  HVW68_RS21330 (HVW68_21330) - 4495529..4495789 (-) 261 WP_181825828.1 hypothetical protein -
  HVW68_RS21335 (HVW68_21335) - 4496056..4496475 (-) 420 WP_181825829.1 hypothetical protein -
  HVW68_RS21340 (HVW68_21340) - 4496468..4498483 (-) 2016 WP_181825830.1 integrase -
  HVW68_RS21345 (HVW68_21345) - 4498476..4500032 (-) 1557 WP_181825831.1 site-specific integrase -
  HVW68_RS21350 (HVW68_21350) - 4500022..4501275 (-) 1254 WP_181825832.1 site-specific integrase -
  HVW68_RS21355 (HVW68_21355) ssb 4501432..4501956 (-) 525 WP_046671365.1 single-stranded DNA-binding protein SSB1 Machinery gene

Sequence

Protein


Download         Length: 174 a.a.        Molecular weight: 18607.63 Da        Isoelectric Point: 5.2456

>NTDB_id=462145 HVW68_RS21355 WP_046671365.1 4501432..4501956(-) (ssb) [Citrobacter freundii strain RHB12-C19]
MASRGVNKVILVGNLGQDPEVRYMPNGGAVANITLATSESWRDKATGEMKEQTEWHRVVLFGKLAEVASEYLRKGSQVYI
EGQLRTRKWTDQSGVEKYTTEVVVNVGGTMQMLGGRQGGGAPAGGGQQQGGWGQPQQPQGGNQFSGGGQSRPQQSAPAAP
SNEPPMDFDDDIPF

Nucleotide


Download         Length: 525 bp        

>NTDB_id=462145 HVW68_RS21355 WP_046671365.1 4501432..4501956(-) (ssb) [Citrobacter freundii strain RHB12-C19]
ATGGCCAGCAGAGGCGTAAACAAGGTGATTCTCGTCGGTAATCTGGGCCAGGACCCGGAAGTACGCTATATGCCGAATGG
TGGCGCAGTTGCCAACATTACGCTGGCTACTTCCGAATCCTGGCGTGATAAAGCGACCGGTGAAATGAAAGAGCAGACTG
AATGGCACCGCGTTGTGCTGTTTGGCAAACTGGCGGAAGTGGCCAGTGAATATCTGCGTAAAGGTTCCCAGGTCTATATC
GAAGGTCAGCTGCGTACCCGCAAATGGACCGATCAGTCCGGCGTAGAAAAGTACACCACTGAGGTTGTTGTTAACGTTGG
CGGCACCATGCAAATGCTGGGCGGTCGTCAGGGCGGTGGTGCTCCGGCAGGTGGCGGCCAGCAGCAGGGTGGTTGGGGTC
AGCCTCAGCAGCCGCAGGGCGGCAATCAGTTCAGCGGCGGCGGGCAGTCTCGTCCGCAGCAGTCCGCTCCGGCAGCGCCG
TCTAACGAACCGCCGATGGATTTCGACGACGATATTCCGTTCTGA

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

73.889

100

0.764
  ssb Glaesserella parasuis strain SC1401

56.831

100

0.598
  ssb Neisseria meningitidis MC58

48.045

100

0.494
  ssb Neisseria gonorrhoeae MS11

48.045

100

0.494