Detailed information    

experimental Experimentally validated

Overview

Name   comX/sigX   Type   Regulator
Locus tag   SSUD9_RS00080 Genome accession   NC_017620
Coordinates   16136..16606 (+) Length   156 a.a.
NCBI ID   WP_002936602.1    Uniprot ID   A0A075SE61
Organism   Streptococcus suis D9     
Function   activate transcription of late competence genes   
Competence regulation

Function

Induction of competence was dependent on ComX, a sigma factor that controls the streptococcal late competence regulon, extracellular addition of a comX-inducing peptide (XIP), and ComR, a regulator of comX. XIP was identified as an N-terminally truncated variant of ComS.


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 13840..56362 16136..16606 within 0


Gene organization within MGE regions


Location: 13840..56362
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  SSUD9_RS00075 (SSUD9_0015) ftsH 13840..15810 (+) 1971 WP_004194314.1 ATP-dependent zinc metalloprotease FtsH -
  SSUD9_RS00080 (SSUD9_0016) comX/sigX 16136..16606 (+) 471 WP_002936602.1 sigma-70 family RNA polymerase sigma factor Regulator
  SSUD9_RS00185 (SSUD9_0020) mreC 23908..24744 (+) 837 WP_009908845.1 rod shape-determining protein MreC -
  SSUD9_RS00190 (SSUD9_0021) mreD 24761..25249 (+) 489 WP_009908846.1 rod shape-determining protein MreD -
  SSUD9_RS00195 (SSUD9_0022) pcsB 25334..26590 (+) 1257 WP_002935338.1 peptidoglycan hydrolase PcsB -
  SSUD9_RS00200 (SSUD9_0023) - 26693..27661 (+) 969 WP_002935337.1 ribose-phosphate diphosphokinase -
  SSUD9_RS00205 (SSUD9_0024) - 27748..28926 (+) 1179 WP_002935336.1 pyridoxal phosphate-dependent aminotransferase -
  SSUD9_RS00210 (SSUD9_0025) recO 28913..29695 (+) 783 WP_002935335.1 DNA repair protein RecO -
  SSUD9_RS00215 (SSUD9_0026) plsX 29692..30699 (+) 1008 WP_002935334.1 phosphate acyltransferase PlsX -
  SSUD9_RS00220 (SSUD9_0027) - 30692..30940 (+) 249 WP_002935333.1 phosphopantetheine-binding protein -
  SSUD9_RS00225 (SSUD9_0028) purC 31058..31765 (+) 708 WP_002935328.1 phosphoribosylaminoimidazolesuccinocarboxamide synthase -
  SSUD9_RS00230 (SSUD9_0029) - 31778..35497 (+) 3720 WP_014636740.1 phosphoribosylformylglycinamidine synthase -
  SSUD9_RS00235 (SSUD9_0030) purF 35500..36954 (+) 1455 WP_002935326.1 amidophosphoribosyltransferase -
  SSUD9_RS00240 (SSUD9_0031) purM 37010..38032 (+) 1023 WP_009908859.1 phosphoribosylformylglycinamidine cyclo-ligase -
  SSUD9_RS00245 (SSUD9_0032) purN 38029..38580 (+) 552 WP_009908860.1 phosphoribosylglycinamide formyltransferase -
  SSUD9_RS00250 (SSUD9_0033) purH 38590..40137 (+) 1548 WP_002935323.1 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase -
  SSUD9_RS00255 (SSUD9_0034) - 40202..41032 (+) 831 WP_002935322.1 DNA adenine methylase -
  SSUD9_RS00260 (SSUD9_0035) - 41022..41837 (+) 816 WP_032499218.1 DNA-methyltransferase -
  SSUD9_RS00265 (SSUD9_0036) - 41815..42741 (+) 927 WP_002935320.1 type II restriction endonuclease -
  SSUD9_RS00270 (SSUD9_0037) - 42741..43646 (+) 906 WP_002935319.1 type II restriction endonuclease -
  SSUD9_RS00275 (SSUD9_0038) purD 43767..45029 (+) 1263 WP_002935318.1 phosphoribosylamine--glycine ligase -
  SSUD9_RS00280 (SSUD9_0039) purE 45055..45543 (+) 489 WP_002935317.1 5-(carboxyamino)imidazole ribonucleotide mutase -
  SSUD9_RS00285 (SSUD9_0040) purK 45530..46615 (+) 1086 WP_002935314.1 5-(carboxyamino)imidazole ribonucleotide synthase -
  SSUD9_RS00290 (SSUD9_0041) - 46602..47525 (+) 924 WP_002935313.1 DUF4268 domain-containing protein -
  SSUD9_RS00295 (SSUD9_0042) purB 47560..48852 (+) 1293 WP_013730055.1 adenylosuccinate lyase -
  SSUD9_RS00300 (SSUD9_0043) - 49361..50185 (+) 825 WP_002935311.1 ABC transporter ATP-binding protein -
  SSUD9_RS00305 (SSUD9_0044) - 50178..50912 (+) 735 WP_002935310.1 ABC transporter permease -
  SSUD9_RS00310 (SSUD9_0046) - 51247..51975 (+) 729 WP_002935309.1 DUF2705 family protein -
  SSUD9_RS00315 (SSUD9_0047) - 51985..52563 (+) 579 WP_002935308.1 CPBP family intramembrane glutamic endopeptidase -
  SSUD9_RS00320 (SSUD9_0048) - 52578..53006 (+) 429 WP_002935307.1 Msa family membrane protein -
  SSUD9_RS00325 (SSUD9_0049) - 52999..53871 (+) 873 WP_002935305.1 ABC transporter ATP-binding protein -
  SSUD9_RS00330 (SSUD9_0050) - 53877..54647 (+) 771 WP_002935304.1 membrane protein -
  SSUD9_RS00335 (SSUD9_0051) - 54650..56362 (+) 1713 WP_002935303.1 ABC transporter ATP-binding protein -

Regulatory network

Positive effect      
Negative effect
Regulator Target Regulation
  comX/sigX late competence genes positive effect
  comX/sigX late competence genes positive effect
  comR comX/sigX positive effect
  comS comX/sigX positive effect

Sequence

Protein


Download         Length: 156 a.a.        Molecular weight: 19072.97 Da        Isoelectric Point: 8.9339

>NTDB_id=457 SSUD9_RS00080 WP_002936602.1 16136..16606(+) (comX/sigX) [Streptococcus suis D9]
MEFEKVYASVKGIVNKARKEFYIKLWDRDDWEQEGMMTLFELLEAQPWLVDEQVQLYCYFKVKFRNRIKDRIRKQESQKR
KFDRMPHEDIHELSHAIQSPGLINDELLMLRGALRDYRKNLSNDQLDKYEKLISGQCFNGRREMIRDLQIHLKDFR

Nucleotide


Download         Length: 471 bp        

>NTDB_id=457 SSUD9_RS00080 WP_002936602.1 16136..16606(+) (comX/sigX) [Streptococcus suis D9]
ATGGAATTCGAAAAAGTGTACGCAAGCGTCAAAGGTATTGTAAATAAGGCTCGAAAAGAGTTTTACATTAAACTATGGGA
TCGAGATGATTGGGAACAAGAAGGAATGATGACCTTGTTTGAATTGTTGGAAGCTCAACCGTGGCTAGTTGATGAACAAG
TTCAATTATATTGTTATTTTAAAGTCAAGTTCAGAAATCGAATCAAGGATCGTATCCGCAAACAGGAAAGTCAAAAACGC
AAGTTTGACCGTATGCCACATGAAGATATTCACGAATTATCTCACGCAATACAATCACCGGGATTAATAAACGATGAACT
ATTAATGCTAAGAGGTGCCTTGAGAGATTATCGAAAAAATCTGAGTAATGATCAACTTGATAAATACGAAAAATTAATTA
GCGGACAATGTTTTAATGGTCGCCGTGAAATGATACGTGATTTACAAATTCATTTGAAAGACTTTCGCTAA

Domains


No domain identified.



Secondary structure

Protein secondary structures were predicted by S4PRED and visualized by seqviz.



3D structure

Source ID Structure
  AlphaFold DB A0A075SE61

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
  comX/sigX Streptococcus suis isolate S10

99.359

100

0.994
  comX/sigX Streptococcus suis P1/7

99.359

100

0.994
  comR/comR2 Streptococcus gordonii str. Challis substr. CH1

49.032

99.359

0.487
  comR/comR1 Streptococcus gordonii str. Challis substr. CH1

49.032

99.359

0.487
  comX/comX2 Streptococcus pneumoniae TIGR4

46.358

96.795

0.449
  comX/comX1 Streptococcus pneumoniae TIGR4

46.358

96.795

0.449
  comX/sigX/comX2/sigX2 Streptococcus mitis NCTC 12261

45.752

98.077

0.449
  comX/sigX/comX1/sigX1 Streptococcus mitis SK321

45.098

98.077

0.442
  comX/sigX/comX2/sigX2 Streptococcus mitis SK321

45.098

98.077

0.442
  comX/comX1 Streptococcus pneumoniae D39

45.695

96.795

0.442
  comX/comX2 Streptococcus pneumoniae Rx1

45.695

96.795

0.442
  comX/comX1 Streptococcus pneumoniae Rx1

45.695

96.795

0.442
  comX/comX2 Streptococcus pneumoniae D39

45.695

96.795

0.442
  comX/comX2 Streptococcus pneumoniae R6

45.695

96.795

0.442
  comX/comX1 Streptococcus pneumoniae R6

45.695

96.795

0.442
  comX/sigX/comX1/sigX1 Streptococcus mitis NCTC 12261

44.444

98.077

0.436
  comX/sigX Streptococcus mutans UA159

43.226

99.359

0.429
  comX/sigX/comX1/sigX1 Streptococcus pyogenes MGAS315

40.645

99.359

0.404
  comX/sigX/comX2/sigX2 Streptococcus pyogenes MGAS315

40.645

99.359

0.404
  comX Streptococcus thermophilus LMD-9

40.523

98.077

0.397
  comX Streptococcus thermophilus LMG 18311

40.523

98.077

0.397
  comX Streptococcus sobrinus strain NIDR 6715-7

40.523

98.077

0.397
  comX/sigX/comX1/sigX1 Streptococcus pyogenes MGAS8232

40

99.359

0.397
  comX/sigX/comX2/sigX2 Streptococcus pyogenes JRS4

40

99.359

0.397
  comX/sigX/comX2/sigX2 Streptococcus pyogenes MGAS8232

40

99.359

0.397
  comX/sigX/comX1/sigX1 Streptococcus pyogenes JRS4

40

99.359

0.397
  comX/sigX Streptococcus infantarius subsp. infantarius ATCC BAA-102

38.854

100

0.391
  comX Streptococcus salivarius SK126

39.869

98.077

0.391
  comX/sigX Streptococcus salivarius strain HSISS4

39.869

98.077

0.391

Multiple sequence alignment    



References

[1] Edoardo Zaccaria et al. (2014) Control of competence for DNA transformation in streptococcus suis by genetically transferable pherotypes. PloS One 9(6):e99394. [PMID: 24968201]