Detailed information    

experimental Experimentally validated

Overview

Name   comX/comX1   Type   Regulator
Locus tag   SPD_RS00065 Genome accession   NC_008533
Coordinates   14254..14733 (+) Length   159 a.a.
NCBI ID   WP_000588897.1    Uniprot ID   Q9R2W8
Organism   Streptococcus pneumoniae D39     
Function   activate transcription of late competence genes   
Competence regulation

Function

The comX gene encodes an alternative sigma factor activates transcription of the late competence genes by binding to a conserved sequence motif (combox) present in the promoters of these genes.


Genomic Context

Location: 9254..19733
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  SPD_RS00050 (SPD_0011) tilS 10335..11612 (+) 1278 WP_001208977.1 tRNA lysidine(34) synthetase TilS -
  SPD_RS00055 (SPD_0012) hpt 11616..12158 (+) 543 WP_000892185.1 hypoxanthine phosphoribosyltransferase -
  SPD_RS00060 (SPD_0013) ftsH 12174..14132 (+) 1959 WP_000744557.1 ATP-dependent zinc metalloprotease FtsH -
  SPD_RS00065 (SPD_0014) comX/comX1 14254..14733 (+) 480 WP_000588897.1 sigma-70 family RNA polymerase sigma factor Regulator

Regulatory network

Positive effect      
Negative effect
Regulator Target Regulation
  comX/comX1 late competence genes positive effect
  comX/comX2 late competence genes positive effect
  comX/comX2 late competence genes positive effect
  comW comX/comX2 positive effect
  clpE comX/comX2 negative effect
  clpP comX/comX2 negative effect
  comE comX/comX2 positive effect
  comX/comX1 late competence genes positive effect
  comW comX/comX1 positive effect
  clpE comX/comX1 negative effect
  comE comX/comX1 positive effect
  clpP comX/comX1 negative effect
  mecA comW negative effect
  clpC comW negative effect
  comE comW positive effect
  comE comM positive effect
  comE comA positive effect
  comE comB positive effect
  comE comE positive effect
  comE comD/comD1 positive effect
  comE comC/comC1 positive effect
  comD/comD1 comE positive effect
  stkP comE positive effect
  ccpA comE positive effect
  clpP comW negative effect
  comM cbpD negative effect
  comA comC/comC1 positive effect
  comB comC/comC1 positive effect
  comC/comC1 comD/comD1 positive effect
  ccpA comD/comD1 positive effect
  ccpA comC/comC1 positive effect
  htrA comC/comC1 negative effect
  ciaR comC/comC1 negative effect
  ciaH comC/comC1 negative effect
  cbpD lytA positive effect
  cbpD lytC positive effect
  htrA comEA/celA/cilE negative effect
  htrA comEC/celB negative effect
  ciaR htrA positive effect
  ciaH htrA positive effect

Sequence

Protein


Download         Length: 159 a.a.        Molecular weight: 19873.52 Da        Isoelectric Point: 7.3797

>NTDB_id=210 SPD_RS00065 WP_000588897.1 14254..14733(+) (comX/comX1) [Streptococcus pneumoniae D39]
MIKELYEEVQGTVYKCRNEYYLHLWELSDWDQEGMLCLHELISREEGLVDDIPRLRKYFKTKFRNRILDYIRKQESQKRR
YDKEPYEEVGEISHRISEGGLWLDDYYLFHETLRDYRNKQSKEKQEELERVLSNERFRGRQRVLRDLRIVFKEFTIRTH

Nucleotide


Download         Length: 480 bp        

>NTDB_id=210 SPD_RS00065 WP_000588897.1 14254..14733(+) (comX/comX1) [Streptococcus pneumoniae D39]
ATGATTAAAGAATTGTATGAAGAAGTCCAAGGGACTGTGTATAAGTGTAGAAATGAATATTACCTTCATTTATGGGAATT
GTCGGATTGGGACCAAGAAGGCATGCTCTGCTTACATGAATTGATTAGTAGAGAAGAAGGACTGGTAGACGATATTCCAC
GTTTAAGGAAATATTTCAAAACCAAGTTTCGAAATCGAATTTTAGACTATATCCGTAAGCAGGAAAGTCAGAAGCGTAGA
TACGATAAAGAACCCTATGAAGAAGTGGGTGAGATCAGTCATCGTATAAGTGAGGGGGGTCTCTGGCTAGATGATTATTA
TCTCTTTCATGAAACACTAAGAGATTATAGAAACAAACAAAGTAAAGAGAAACAAGAAGAACTAGAACGCGTCTTAAGCA
ATGAACGATTTCGAGGGCGTCAAAGAGTATTAAGAGACTTACGCATTGTGTTTAAGGAGTTTACTATCCGTACCCATTAG

Domains


No domain identified.



Secondary structure

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



3D structure

Source ID Structure
  AlphaFold DB Q9R2W8

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/comX2 Streptococcus pneumoniae Rx1

100

100

1
  comX/comX2 Streptococcus pneumoniae D39

100

100

1
  comX/comX1 Streptococcus pneumoniae Rx1

100

100

1
  comX/comX2 Streptococcus pneumoniae R6

100

100

1
  comX/comX1 Streptococcus pneumoniae R6

100

100

1
  comX/comX2 Streptococcus pneumoniae TIGR4

99.371

100

0.994
  comX/comX1 Streptococcus pneumoniae TIGR4

99.371

100

0.994
  comX/sigX/comX2/sigX2 Streptococcus mitis NCTC 12261

92.453

100

0.925
  comX/sigX/comX1/sigX1 Streptococcus mitis NCTC 12261

92.453

100

0.925
  comX/sigX/comX2/sigX2 Streptococcus mitis SK321

90.566

100

0.906
  comX/sigX/comX1/sigX1 Streptococcus mitis SK321

89.241

99.371

0.887
  comR/comR2 Streptococcus gordonii str. Challis substr. CH1

48.718

98.113

0.478
  comR/comR1 Streptococcus gordonii str. Challis substr. CH1

48.718

98.113

0.478
  comX/sigX Streptococcus suis P1/7

45.695

96.795

0.442
  comX/sigX Streptococcus suis D9

45.695

96.795

0.442
  comX/sigX Streptococcus suis isolate S10

45.695

96.795

0.442
  comX/sigX Streptococcus mutans UA159

46

94.34

0.434
  comX/sigX/comX1/sigX1 Streptococcus pyogenes MGAS315

39.216

96.226

0.377
  comX/sigX/comX2/sigX2 Streptococcus pyogenes MGAS315

39.216

96.226

0.377
  comX/sigX/comX2/sigX2 Streptococcus pyogenes JRS4

40

94.34

0.377
  comX/sigX/comX1/sigX1 Streptococcus pyogenes JRS4

40

94.34

0.377
  comX/sigX/comX2/sigX2 Streptococcus pyogenes MGAS8232

40

94.34

0.377
  comX/sigX/comX1/sigX1 Streptococcus pyogenes MGAS8232

40

94.34

0.377

Multiple sequence alignment    



References

[1] Andrew Piotrowski et al. (2009) Competence for genetic transformation in Streptococcus pneumoniae: termination of activity of the alternative sigma factor ComX is independent of proteolysis of ComX and ComW. Journal of Bacteriology 191(10):3359-66. [PMID: 19286798]
[2] Chang Kyoo Sung et al. (2005) Two distinct functions of ComW in stabilization and activation of the alternative sigma factor ComX in Streptococcus pneumoniae. Journal of Bacteriology 187(9):3052-61. [PMID: 15838032]
[3] Scott N Peterson et al. (2004) Identification of competence pheromone responsive genes in Streptococcus pneumoniae by use of DNA microarrays. Molecular Microbiology 51(4):1051-70. [PMID: 14763980]
[4] Ping Luo et al. (2003) Transient association of an alternative sigma factor, ComX, with RNA polymerase during the period of competence for genetic transformation in Streptococcus pneumoniae. Journal of Bacteriology 185(1):349-58. [PMID: 12486073]
[5] Ping Luo et al. (2003) ComX is a unique link between multiple quorum sensing outputs and competence in Streptococcus pneumoniae. Molecular Microbiology 50(2):623-33. [PMID: 14617184]
[6] M S Lee et al. (1999) Identification of a new regulator in Streptococcus pneumoniae linking quorum sensing to competence for genetic transformation. Journal of Bacteriology 181(16):5004-16. [PMID: 10438773]
[7] E A Campbell et al. (1998) A competence regulon in Streptococcus pneumoniae revealed by genomic analysis. Molecular Microbiology 27(5):929-39. [PMID: 9535083]