Detailed information    

insolico Bioinformatically predicted

Overview

Name   ssb   Type   Machinery gene
Locus tag   K5L00_RS00250 Genome accession   NZ_CP081459
Coordinates   46523..47047 (+) Length   174 a.a.
NCBI ID   WP_207027556.1    Uniprot ID   -
Organism   Vagococcus fluvialis strain 110B2     
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 38662..50706 46523..47047 within 0


Gene organization within MGE regions


Location: 38662..50706
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  K5L00_RS00220 (K5L00_00220) dnaN 38662..39792 (+) 1131 WP_086340751.1 DNA polymerase III subunit beta -
  K5L00_RS00225 (K5L00_00225) yaaA 39998..40231 (+) 234 WP_086340750.1 S4 domain-containing protein YaaA -
  K5L00_RS00230 (K5L00_00230) recF 40236..41357 (+) 1122 WP_114290348.1 DNA replication/repair protein RecF -
  K5L00_RS00235 (K5L00_00235) gyrB 41360..43306 (+) 1947 WP_114290347.1 DNA topoisomerase (ATP-hydrolyzing) subunit B -
  K5L00_RS00240 (K5L00_00240) gyrA 43329..45815 (+) 2487 WP_114290346.1 DNA gyrase subunit A -
  K5L00_RS00245 (K5L00_00245) rpsF 46175..46477 (+) 303 WP_086340746.1 30S ribosomal protein S6 -
  K5L00_RS00250 (K5L00_00250) ssb 46523..47047 (+) 525 WP_207027556.1 single-stranded DNA-binding protein Machinery gene
  K5L00_RS00255 (K5L00_00255) rpsR 47069..47311 (+) 243 WP_086340744.1 30S ribosomal protein S18 -
  K5L00_RS00260 (K5L00_00260) rplI 47457..47909 (+) 453 WP_114290344.1 50S ribosomal protein L9 -
  K5L00_RS00265 (K5L00_00265) dnaB 47933..49294 (+) 1362 WP_086340742.1 replicative DNA helicase -
  K5L00_RS00270 (K5L00_00270) - 49414..50706 (+) 1293 WP_207027558.1 adenylosuccinate synthase -

Sequence

Protein


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

>NTDB_id=596541 K5L00_RS00250 WP_207027556.1 46523..47047(+) (ssb) [Vagococcus fluvialis strain 110B2]
MINNVVLVGRLTRDPELRFTSNGSAVATFNLAVNRNFTNQSGEREADFVNCVIWRKPAETLANYAKKGTLLGVVGRIQTR
NYENQQGQKVYVTEVVCDNFQLLESRNVSEQRQQSGGFGQSDMGNNFNSFSQNQNNQSFGGQSSSKKEMPNFDRDSDPFG
SSSQIDISDDDLPF

Nucleotide


Download         Length: 525 bp        

>NTDB_id=596541 K5L00_RS00250 WP_207027556.1 46523..47047(+) (ssb) [Vagococcus fluvialis strain 110B2]
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