Detailed information    

insolico Bioinformatically predicted

Overview

Name   ssb   Type   Machinery gene
Locus tag   GRI05_RS09320 Genome accession   NZ_CP047248
Coordinates   1895989..1896402 (-) Length   137 a.a.
NCBI ID   WP_192584836.1    Uniprot ID   -
Organism   Streptococcus suis strain LSM178     
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 1869400..1912429 1895989..1896402 within 0


Gene organization within MGE regions


Location: 1869400..1912429
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  GRI05_RS09155 (GRI05_09355) rpsB 1869400..1870176 (-) 777 WP_012775356.1 30S ribosomal protein S2 -
  GRI05_RS09160 (GRI05_09360) - 1870523..1871035 (-) 513 WP_012775452.1 adenylate kinase -
  GRI05_RS09170 (GRI05_09370) - 1871862..1872266 (-) 405 WP_029185623.1 type II toxin-antitoxin system HicB family antitoxin -
  GRI05_RS09175 (GRI05_09375) - 1872326..1872511 (-) 186 WP_024381116.1 type II toxin-antitoxin system HicA family toxin -
  GRI05_RS09180 (GRI05_09380) - 1872665..1874071 (-) 1407 WP_192584820.1 peptidoglycan amidohydrolase family protein -
  GRI05_RS09185 (GRI05_09385) - 1874074..1874403 (-) 330 WP_024402342.1 phage holin -
  GRI05_RS09190 (GRI05_09390) - 1874406..1874705 (-) 300 WP_029171103.1 hypothetical protein -
  GRI05_RS09195 (GRI05_09395) - 1874717..1875058 (-) 342 WP_192584821.1 hypothetical protein -
  GRI05_RS09200 (GRI05_09400) - 1875061..1875291 (-) 231 WP_044675236.1 hypothetical protein -
  GRI05_RS09205 (GRI05_09405) - 1875308..1880254 (-) 4947 WP_192584822.1 phage tail spike protein -
  GRI05_RS09210 (GRI05_09410) - 1880255..1880977 (-) 723 WP_192584823.1 phage tail protein -
  GRI05_RS09215 (GRI05_09415) - 1880980..1884129 (-) 3150 WP_192584824.1 phage tail tape measure protein -
  GRI05_RS09220 (GRI05_09420) - 1884437..1884856 (-) 420 WP_105142105.1 hypothetical protein -
  GRI05_RS09225 (GRI05_09425) - 1884868..1885443 (-) 576 WP_044475325.1 major tail protein -
  GRI05_RS09230 (GRI05_09430) - 1885456..1885779 (-) 324 WP_024402334.1 hypothetical protein -
  GRI05_RS09235 (GRI05_09435) - 1885776..1886129 (-) 354 WP_192584825.1 HK97 gp10 family phage protein -
  GRI05_RS09240 (GRI05_09440) - 1886126..1886425 (-) 300 WP_192584826.1 phage head closure protein -
  GRI05_RS09245 (GRI05_09445) - 1886412..1886693 (-) 282 WP_043035806.1 hypothetical protein -
  GRI05_RS09250 (GRI05_09450) - 1886696..1886998 (-) 303 WP_192584827.1 hypothetical protein -
  GRI05_RS09255 (GRI05_09455) - 1887010..1888176 (-) 1167 WP_192584828.1 phage major capsid protein -
  GRI05_RS09260 (GRI05_09460) - 1888173..1888751 (-) 579 WP_192584829.1 HK97 family phage prohead protease -
  GRI05_RS09265 (GRI05_09465) - 1888738..1889940 (-) 1203 WP_192584830.1 phage portal protein -
  GRI05_RS09270 (GRI05_09470) - 1889963..1891738 (-) 1776 WP_192584831.1 terminase large subunit -
  GRI05_RS09275 (GRI05_09475) - 1891731..1892120 (-) 390 WP_044675115.1 P27 family phage terminase small subunit -
  GRI05_RS09280 (GRI05_09480) - 1892231..1892563 (-) 333 WP_029694579.1 HNH endonuclease -
  GRI05_RS09285 (GRI05_09485) - 1892848..1893390 (-) 543 WP_044475317.1 site-specific integrase -
  GRI05_RS09290 (GRI05_09490) - 1893507..1894166 (-) 660 WP_225938934.1 hypothetical protein -
  GRI05_RS09295 (GRI05_09495) - 1894298..1894693 (-) 396 WP_099776261.1 hypothetical protein -
  GRI05_RS09300 (GRI05_09500) - 1894677..1894946 (-) 270 WP_192584832.1 hypothetical protein -
  GRI05_RS09305 (GRI05_09505) - 1894943..1895464 (-) 522 WP_192584833.1 hypothetical protein -
  GRI05_RS09310 (GRI05_09510) - 1895457..1895636 (-) 180 WP_192584834.1 hypothetical protein -
  GRI05_RS09315 (GRI05_09515) - 1895629..1895976 (-) 348 WP_192584835.1 hypothetical protein -
  GRI05_RS09320 (GRI05_09520) ssb 1895989..1896402 (-) 414 WP_192584836.1 single-stranded DNA-binding protein Machinery gene
  GRI05_RS09325 (GRI05_09525) - 1896413..1896601 (-) 189 WP_192584837.1 hypothetical protein -
  GRI05_RS09330 (GRI05_09530) - 1896586..1896876 (-) 291 WP_338135450.1 DUF3310 domain-containing protein -
  GRI05_RS09335 (GRI05_09535) - 1896894..1897133 (-) 240 WP_371318548.1 DUF1372 family protein -
  GRI05_RS09340 (GRI05_09540) - 1897196..1897681 (-) 486 WP_192584839.1 MazG-like family protein -
  GRI05_RS09345 (GRI05_09545) - 1897674..1897925 (-) 252 WP_044475308.1 hypothetical protein -
  GRI05_RS09350 (GRI05_09550) - 1897922..1898161 (-) 240 WP_225938936.1 hypothetical protein -
  GRI05_RS09355 (GRI05_09555) - 1898167..1898628 (-) 462 WP_192584840.1 class I SAM-dependent methyltransferase -
  GRI05_RS09360 (GRI05_09560) - 1898628..1899449 (-) 822 WP_192584841.1 ATP-binding protein -
  GRI05_RS09365 (GRI05_09565) - 1899450..1900208 (-) 759 WP_192584842.1 conserved phage C-terminal domain-containing protein -
  GRI05_RS09370 (GRI05_09570) dnaB 1900211..1901539 (-) 1329 WP_192584843.1 replicative DNA helicase -
  GRI05_RS09375 (GRI05_09575) - 1901511..1901684 (-) 174 WP_153598786.1 hypothetical protein -
  GRI05_RS09380 (GRI05_09580) - 1901687..1901941 (-) 255 WP_043035785.1 hypothetical protein -
  GRI05_RS09385 (GRI05_09585) - 1901943..1902131 (-) 189 WP_044685832.1 hypothetical protein -
  GRI05_RS09390 (GRI05_09590) - 1902128..1902412 (-) 285 WP_044685831.1 hypothetical protein -
  GRI05_RS09395 (GRI05_09595) - 1902434..1902799 (-) 366 WP_044685830.1 hypothetical protein -
  GRI05_RS09400 (GRI05_09600) - 1902799..1903011 (-) 213 WP_043033188.1 helix-turn-helix domain-containing protein -
  GRI05_RS09405 (GRI05_09605) - 1903074..1903433 (+) 360 WP_043033187.1 hypothetical protein -
  GRI05_RS09410 (GRI05_09610) - 1903417..1903584 (-) 168 WP_153582878.1 hypothetical protein -
  GRI05_RS09415 (GRI05_09620) - 1903867..1904229 (+) 363 WP_000114553.1 helix-turn-helix domain-containing protein -
  GRI05_RS09420 (GRI05_09625) - 1904236..1904616 (+) 381 WP_192584844.1 ImmA/IrrE family metallo-endopeptidase -
  GRI05_RS09425 (GRI05_09630) - 1904669..1905073 (+) 405 WP_192584845.1 DUF4429 domain-containing protein -
  GRI05_RS09430 (GRI05_09635) - 1905198..1906268 (+) 1071 WP_044685829.1 site-specific integrase -
  GRI05_RS09435 (GRI05_09645) - 1906382..1911460 (-) 5079 WP_043028958.1 S8 family serine peptidase -
  GRI05_RS09440 (GRI05_09650) nusG 1911604..1912143 (-) 540 WP_002940254.1 transcription termination/antitermination protein NusG -
  GRI05_RS09445 (GRI05_09655) secE 1912253..1912429 (-) 177 WP_002940255.1 preprotein translocase subunit SecE -

Sequence

Protein


Download         Length: 137 a.a.        Molecular weight: 15476.33 Da        Isoelectric Point: 4.8723

>NTDB_id=411877 GRI05_RS09320 WP_192584836.1 1895989..1896402(-) (ssb) [Streptococcus suis strain LSM178]
MINNVTLIGRLTRDVELRYTPNNVAVGAFTLAVNRNFKNAAGDREADFINCVIWNKQAENLANWTKKGHLIGITGRIQTR
SYDNQQGQRVYVTEVVAESFQILEKRDNAANQASMEDQMPPNFASQPMDITDDDLPF

Nucleotide


Download         Length: 414 bp        

>NTDB_id=411877 GRI05_RS09320 WP_192584836.1 1895989..1896402(-) (ssb) [Streptococcus suis strain LSM178]
ATGATCAATAATGTTACTTTAATTGGCCGATTGACCAGGGATGTTGAGCTACGTTATACACCTAATAATGTTGCAGTAGG
CGCATTCACGCTGGCCGTCAACCGTAATTTTAAGAATGCAGCTGGAGACCGTGAGGCAGATTTTATCAACTGCGTCATTT
GGAACAAGCAAGCTGAAAACTTGGCAAACTGGACTAAGAAAGGTCATCTGATTGGCATTACAGGTCGAATCCAGACACGG
AGCTACGACAATCAGCAAGGGCAACGTGTCTACGTTACTGAGGTAGTCGCTGAAAGTTTCCAAATACTTGAAAAGCGTGA
TAATGCAGCCAATCAAGCAAGCATGGAAGACCAGATGCCACCGAATTTCGCTAGTCAGCCTATGGATATTACAGATGACG
ACTTGCCGTTTTAA

Domains

Predicted by InterproScan.

Single-strand binding protein family (SSB)

(2-102)


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

52.353

100

0.65
  ssbA Bacillus subtilis subsp. subtilis str. 168

48.837

100

0.613
  ssbB Streptococcus sobrinus strain NIDR 6715-7

46.763

100

0.474
  ssbB Bacillus subtilis subsp. subtilis str. 168

53.982

82.482

0.445
  ssbB/cilA Streptococcus mitis NCTC 12261

43.066

100

0.431
  ssbB/cilA Streptococcus pneumoniae TIGR4

43.066

100

0.431
  ssbB/cilA Streptococcus pneumoniae Rx1

42.336

100

0.423
  ssbB/cilA Streptococcus pneumoniae D39

42.336

100

0.423
  ssbB/cilA Streptococcus pneumoniae R6

42.336

100

0.423
  ssbB/cilA Streptococcus mitis SK321

42.336

100

0.423
  ssbA Streptococcus mutans UA159

40.876

100

0.409
  ssbB Lactococcus lactis subsp. cremoris KW2

46.018

82.482

0.38
  ssb Neisseria meningitidis MC58

29.651

100

0.372
  ssb Vibrio cholerae strain A1552

28.902

100

0.365
  ssb Neisseria gonorrhoeae MS11

29.07

100

0.365

Multiple sequence alignment