Detailed information    

insolico Bioinformatically predicted

Overview

Name   ssb   Type   Machinery gene
Locus tag   K5K98_RS10070 Genome accession   NZ_CP081466
Coordinates   1933581..1934105 (+) Length   174 a.a.
NCBI ID   WP_207027556.1    Uniprot ID   -
Organism   Vagococcus fluvialis strain 35B2     
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 1925720..1937764 1933581..1934105 within 0


Gene organization within MGE regions


Location: 1925720..1937764
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  K5K98_RS10040 (K5K98_10025) dnaN 1925720..1926850 (+) 1131 WP_086340751.1 DNA polymerase III subunit beta -
  K5K98_RS10045 (K5K98_10030) yaaA 1927056..1927289 (+) 234 WP_086340750.1 S4 domain-containing protein YaaA -
  K5K98_RS10050 (K5K98_10035) recF 1927294..1928415 (+) 1122 WP_114290348.1 DNA replication/repair protein RecF -
  K5K98_RS10055 (K5K98_10040) gyrB 1928418..1930364 (+) 1947 WP_114290347.1 DNA topoisomerase (ATP-hydrolyzing) subunit B -
  K5K98_RS10060 (K5K98_10045) gyrA 1930387..1932873 (+) 2487 WP_114290346.1 DNA gyrase subunit A -
  K5K98_RS10065 (K5K98_10050) rpsF 1933233..1933535 (+) 303 WP_086340746.1 30S ribosomal protein S6 -
  K5K98_RS10070 (K5K98_10055) ssb 1933581..1934105 (+) 525 WP_207027556.1 single-stranded DNA-binding protein Machinery gene
  K5K98_RS10075 (K5K98_10060) rpsR 1934127..1934369 (+) 243 WP_086340744.1 30S ribosomal protein S18 -
  K5K98_RS10080 (K5K98_10065) rplI 1934515..1934967 (+) 453 WP_114290344.1 50S ribosomal protein L9 -
  K5K98_RS10085 (K5K98_10070) dnaB 1934991..1936352 (+) 1362 WP_086340742.1 replicative DNA helicase -
  K5K98_RS10090 (K5K98_10075) - 1936472..1937764 (+) 1293 WP_207027558.1 adenylosuccinate synthase -

Sequence

Protein


Download         Length: 174 a.a.        Molecular weight: 19422.25 Da        Isoelectric Point: 4.7621

>NTDB_id=596640 K5K98_RS10070 WP_207027556.1 1933581..1934105(+) (ssb) [Vagococcus fluvialis strain 35B2]
MINNVVLVGRLTRDPELRFTSNGSAVATFNLAVNRNFTNQSGEREADFVNCVIWRKPAETLANYAKKGTLLGVVGRIQTR
NYENQQGQKVYVTEVVCDNFQLLESRNVSEQRQQSGGFGQSDMGNNFNSFSQNQNNQSFGGQSSSKKEMPNFDRDSDPFG
SSSQIDISDDDLPF

Nucleotide


Download         Length: 525 bp        

>NTDB_id=596640 K5K98_RS10070 WP_207027556.1 1933581..1934105(+) (ssb) [Vagococcus fluvialis strain 35B2]
ATGATTAACAACGTTGTGCTAGTAGGAAGACTTACTCGAGATCCAGAGCTTAGATTTACTTCTAACGGATCAGCTGTAGC
AACTTTTAACTTGGCTGTAAATCGTAACTTCACTAACCAAAGTGGGGAGAGAGAAGCTGATTTTGTTAATTGTGTAATCT
GGAGAAAACCTGCTGAAACATTAGCTAATTATGCCAAAAAAGGTACATTACTAGGTGTTGTAGGCCGTATTCAAACACGT
AATTATGAAAATCAACAAGGTCAAAAAGTATATGTGACAGAAGTAGTATGTGATAATTTCCAATTATTAGAATCACGTAA
CGTGTCTGAACAAAGACAACAATCAGGTGGCTTTGGACAGTCAGATATGGGAAATAATTTCAATAGTTTTTCTCAAAACC
AAAACAATCAATCATTTGGCGGCCAATCTTCAAGTAAAAAAGAAATGCCGAATTTCGATCGTGATAGCGATCCTTTTGGA
AGCTCATCACAAATTGATATCTCGGATGATGATTTACCATTCTAA

Domains

Predicted by InterproScan.

Single-strand binding protein family (SSB)

(2-103)


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 Latilactobacillus sakei subsp. sakei 23K

60.795

100

0.615
  ssbA Bacillus subtilis subsp. subtilis str. 168

56.571

100

0.569
  ssbB Bacillus subtilis subsp. subtilis str. 168

60.377

60.92

0.368
  ssbB/cilA Streptococcus pneumoniae TIGR4

51.22

70.69

0.362