Detailed information    

insolico Bioinformatically predicted

Overview

Name   ssb   Type   Machinery gene
Locus tag   RJW55_RS10185 Genome accession   NZ_CP134473
Coordinates   2169848..2170264 (-) Length   138 a.a.
NCBI ID   WP_043024716.1    Uniprot ID   -
Organism   Streptococcus suis strain TMW_SS028     
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 2148746..2182143 2169848..2170264 within 0


Gene organization within MGE regions


Location: 2148746..2182143
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  RJW55_RS10050 (RJW55_10050) - 2148746..2149150 (-) 405 WP_024399138.1 type II toxin-antitoxin system HicB family antitoxin -
  RJW55_RS10055 (RJW55_10055) - 2149211..2149396 (-) 186 WP_029185622.1 type II toxin-antitoxin system HicA family toxin -
  RJW55_RS10060 (RJW55_10060) - 2149579..2151000 (-) 1422 WP_043026720.1 peptidoglycan amidohydrolase family protein -
  RJW55_RS10065 (RJW55_10065) - 2151088..2151333 (-) 246 WP_029172929.1 phage holin -
  RJW55_RS10070 (RJW55_10070) - 2151337..2151762 (-) 426 WP_029172930.1 hypothetical protein -
  RJW55_RS10075 (RJW55_10075) - 2151766..2152011 (-) 246 WP_029172931.1 hypothetical protein -
  RJW55_RS10080 (RJW55_10080) - 2152014..2152226 (-) 213 WP_061631527.1 hypothetical protein -
  RJW55_RS10085 (RJW55_10085) - 2152235..2155381 (-) 3147 WP_061756372.1 phage tail spike protein -
  RJW55_RS10090 (RJW55_10090) - 2155382..2156104 (-) 723 WP_172045804.1 phage tail protein -
  RJW55_RS10095 (RJW55_10095) - 2156101..2158905 (-) 2805 WP_172073076.1 phage tail tape measure protein -
  RJW55_RS10100 (RJW55_10100) - 2159094..2159567 (-) 474 WP_043024729.1 hypothetical protein -
  RJW55_RS10105 (RJW55_10105) - 2159567..2160259 (-) 693 WP_043024728.1 phage tail protein -
  RJW55_RS10110 (RJW55_10110) - 2160274..2160618 (-) 345 WP_043024727.1 hypothetical protein -
  RJW55_RS10115 (RJW55_10115) - 2160605..2160952 (-) 348 WP_043024726.1 hypothetical protein -
  RJW55_RS10120 (RJW55_10120) - 2160952..2161257 (-) 306 WP_043024725.1 phage head closure protein -
  RJW55_RS10125 (RJW55_10125) - 2161254..2161589 (-) 336 WP_043024724.1 hypothetical protein -
  RJW55_RS10130 (RJW55_10130) - 2161611..2162873 (-) 1263 WP_172073075.1 phage major capsid protein -
  RJW55_RS10135 (RJW55_10135) - 2162886..2163428 (-) 543 WP_024398435.1 HK97 family phage prohead protease -
  RJW55_RS10140 (RJW55_10140) - 2163479..2164621 (-) 1143 WP_079395270.1 phage portal protein -
  RJW55_RS10145 (RJW55_10145) - 2164630..2166267 (-) 1638 WP_231640485.1 terminase TerL endonuclease subunit -
  RJW55_RS10150 (RJW55_10150) - 2166335..2166820 (-) 486 WP_052496988.1 hypothetical protein -
  RJW55_RS10155 (RJW55_10155) - 2166908..2167270 (-) 363 WP_043024722.1 HNH endonuclease signature motif containing protein -
  RJW55_RS10160 (RJW55_10160) - 2167695..2168237 (-) 543 WP_043024721.1 site-specific integrase -
  RJW55_RS10165 (RJW55_10165) - 2168349..2168813 (-) 465 WP_043024720.1 hypothetical protein -
  RJW55_RS10170 (RJW55_10170) - 2168779..2169024 (-) 246 WP_024398442.1 hypothetical protein -
  RJW55_RS10175 (RJW55_10175) - 2168993..2169127 (-) 135 WP_269434359.1 hypothetical protein -
  RJW55_RS10180 (RJW55_10180) - 2169318..2169584 (-) 267 WP_043024718.1 hypothetical protein -
  RJW55_RS10185 (RJW55_10185) ssb 2169848..2170264 (-) 417 WP_043024716.1 single-stranded DNA-binding protein Machinery gene
  RJW55_RS10190 (RJW55_10190) - 2170268..2170531 (-) 264 WP_043024715.1 helix-turn-helix transcriptional regulator -
  RJW55_RS10195 (RJW55_10195) - 2170540..2170998 (-) 459 WP_043024714.1 class I SAM-dependent methyltransferase -
  RJW55_RS10200 (RJW55_10200) - 2171126..2171347 (-) 222 WP_043024713.1 hypothetical protein -
  RJW55_RS10205 (RJW55_10205) - 2171340..2171693 (-) 354 WP_043027196.1 YopX family protein -
  RJW55_RS10210 (RJW55_10210) - 2171677..2171856 (-) 180 WP_043027195.1 hypothetical protein -
  RJW55_RS10215 (RJW55_10215) - 2171856..2172428 (-) 573 WP_061844414.1 DUF1642 domain-containing protein -
  RJW55_RS10220 (RJW55_10220) - 2172421..2172777 (-) 357 WP_043027197.1 hypothetical protein -
  RJW55_RS10225 (RJW55_10225) - 2172782..2173099 (-) 318 WP_043025578.1 hypothetical protein -
  RJW55_RS10230 (RJW55_10230) - 2173110..2173784 (-) 675 WP_043025580.1 DNA methyltransferase -
  RJW55_RS10235 (RJW55_10235) - 2173837..2173902 (-) 66 Protein_1988 DNA cytosine methyltransferase -
  RJW55_RS10240 (RJW55_10240) - 2174023..2174196 (-) 174 WP_162841075.1 hypothetical protein -
  RJW55_RS10245 (RJW55_10245) - 2174183..2174620 (-) 438 WP_043025581.1 hypothetical protein -
  RJW55_RS10250 (RJW55_10250) - 2174684..2174851 (-) 168 WP_153308617.1 hypothetical protein -
  RJW55_RS10255 (RJW55_10255) - 2174851..2175069 (-) 219 WP_043025582.1 hypothetical protein -
  RJW55_RS10260 (RJW55_10260) - 2175057..2175857 (-) 801 WP_024376892.1 phage replisome organizer N-terminal domain-containing protein -
  RJW55_RS10265 (RJW55_10265) - 2175841..2176005 (-) 165 WP_197315058.1 hypothetical protein -
  RJW55_RS10270 (RJW55_10270) - 2176020..2176274 (-) 255 WP_172045802.1 hypothetical protein -
  RJW55_RS10275 (RJW55_10275) - 2176276..2176464 (-) 189 WP_172045801.1 hypothetical protein -
  RJW55_RS10280 (RJW55_10280) - 2176461..2176745 (-) 285 WP_043025587.1 hypothetical protein -
  RJW55_RS10285 (RJW55_10285) - 2176806..2177270 (-) 465 WP_043025589.1 hypothetical protein -
  RJW55_RS10290 (RJW55_10290) - 2177334..2178041 (-) 708 WP_172073135.1 ORF6C domain-containing protein -
  RJW55_RS10295 (RJW55_10295) - 2178095..2178526 (+) 432 WP_029178370.1 hypothetical protein -
  RJW55_RS10300 (RJW55_10300) - 2178679..2178813 (-) 135 WP_256769127.1 hypothetical protein -
  RJW55_RS10305 (RJW55_10305) - 2178806..2179003 (-) 198 WP_024405319.1 hypothetical protein -
  RJW55_RS10310 (RJW55_10310) - 2179008..2179220 (-) 213 WP_043025601.1 transcriptional regulator -
  RJW55_RS10315 (RJW55_10315) - 2179282..2179488 (+) 207 WP_024404519.1 hypothetical protein -
  RJW55_RS10320 (RJW55_10320) - 2179500..2179700 (-) 201 WP_172073136.1 hypothetical protein -
  RJW55_RS10325 (RJW55_10325) - 2180677..2181036 (+) 360 WP_172073137.1 helix-turn-helix domain-containing protein -
  RJW55_RS10330 (RJW55_10330) - 2181046..2181267 (+) 222 WP_024399050.1 DUF6290 family protein -
  RJW55_RS10335 (RJW55_10335) - 2181257..2181532 (+) 276 WP_024399051.1 type II toxin-antitoxin system RelE/ParE family toxin -
  RJW55_RS10340 (RJW55_10340) - 2181562..2182143 (+) 582 WP_256769128.1 site-specific integrase -

Sequence

Protein


Download         Length: 138 a.a.        Molecular weight: 15670.58 Da        Isoelectric Point: 4.8836

>NTDB_id=880183 RJW55_RS10185 WP_043024716.1 2169848..2170264(-) (ssb) [Streptococcus suis strain TMW_SS028]
MINNIVLVGRLTRDVELRYTPSNQAVATFTLAVNRNFKNQATGEREADFINCVIWNKQAENLANWTKKGHLIGITGRIQT
RSYDNQQGQRVYVTEVVAESFQLLEKRDNTANYSSMDEQMPPCISGQPMDIDDDGLPF

Nucleotide


Download         Length: 417 bp        

>NTDB_id=880183 RJW55_RS10185 WP_043024716.1 2169848..2170264(-) (ssb) [Streptococcus suis strain TMW_SS028]
ATGATCAACAATATTGTTTTGGTTGGTAGATTGACGAGGGATGTAGAGCTACGTTATACACCGTCTAATCAAGCCGTTGC
GACTTTTACCTTGGCAGTTAACCGCAATTTTAAAAATCAAGCAACAGGAGAACGAGAAGCTGACTTTATCAATTGCGTTA
TTTGGAACAAGCAGGCTGAAAATTTAGCCAACTGGACCAAGAAAGGTCACTTGATTGGTATTACTGGACGAATCCAGACC
AGAAGCTACGATAACCAGCAAGGGCAACGTGTTTACGTTACTGAGGTAGTTGCTGAGAGCTTCCAGTTATTGGAAAAGCG
TGATAATACGGCAAATTATTCCAGCATGGATGAGCAGATGCCACCATGCATCAGCGGCCAGCCGATGGATATTGATGATG
ACGGATTGCCGTTTTAG

Domains

Predicted by InterproScan.

Single-strand binding protein family (SSB)

(2-104)


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

53.216

100

0.659
  ssbA Bacillus subtilis subsp. subtilis str. 168

51.136

100

0.652
  ssbB Bacillus subtilis subsp. subtilis str. 168

56.075

77.536

0.435
  ssbB/cilA Streptococcus pneumoniae TIGR4

42.553

100

0.435
  ssbB/cilA Streptococcus mitis NCTC 12261

42.553

100

0.435
  ssbB/cilA Streptococcus pneumoniae R6

41.844

100

0.428
  ssbB/cilA Streptococcus mitis SK321

41.844

100

0.428
  ssbB/cilA Streptococcus pneumoniae Rx1

41.844

100

0.428
  ssbB/cilA Streptococcus pneumoniae D39

41.844

100

0.428
  ssbB Streptococcus sobrinus strain NIDR 6715-7

52.252

80.435

0.42
  ssb Vibrio cholerae strain A1552

29.48

100

0.37
  ssbB Lactococcus lactis subsp. cremoris KW2

46.364

79.71

0.37
  ssbA Streptococcus mutans UA159

45.946

80.435

0.37