Detailed information    

experimental Experimentally validated

Overview

Name   clpP   Type   Regulator
Locus tag   STER_RS01925 Genome accession   NC_008532
Coordinates   347698..348288 (+) Length   196 a.a.
NCBI ID   WP_002949732.1    Uniprot ID   Q5M5U4
Organism   Streptococcus thermophilus LMD-9     
Function   degradation of ComX   
Competence regulation

Function

σX degradation is performed by the MecA–ClpCP complex.


Genomic Context

Location: 342698..353288
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  STER_RS01895 (STER_0389) - 343077..343670 (+) 594 Protein_315 cation transporting ATPase C-terminal domain-containing protein -
  STER_RS01900 (STER_0390) - 343974..345068 (+) 1095 WP_002946733.1 cystathionine gamma-synthase -
  STER_RS01905 (STER_0391) - 345079..346242 (+) 1164 WP_011680761.1 MalY/PatB family protein -
  STER_RS01910 (STER_0392) - 346318..346485 (+) 168 WP_011680762.1 hypothetical protein -
  STER_RS01915 (STER_0393) - 346526..346801 (+) 276 WP_011680763.1 hypothetical protein -
  STER_RS01920 (STER_0394) upp 346931..347560 (+) 630 WP_002946740.1 uracil phosphoribosyltransferase -
  STER_RS01925 (STER_0395) clpP 347698..348288 (+) 591 WP_002949732.1 ATP-dependent Clp protease proteolytic subunit Regulator
  STER_RS01930 (STER_0396) - 348375..348824 (+) 450 WP_011680764.1 YlbF family regulator -
  STER_RS01935 (STER_0397) - 348817..349098 (+) 282 WP_002949736.1 YlbG family protein -
  STER_RS01940 (STER_0398) - 349255..350430 (+) 1176 WP_011680765.1 ABC transporter substrate-binding protein -
  STER_RS01945 (STER_0399) - 350474..351358 (+) 885 WP_011680766.1 branched-chain amino acid ABC transporter permease -
  STER_RS01950 (STER_0400) - 351362..352312 (+) 951 WP_011225510.1 branched-chain amino acid ABC transporter permease -
  STER_RS01955 (STER_0401) - 352315..353079 (+) 765 WP_002949740.1 ABC transporter ATP-binding protein -

Regulatory network

Positive effect      
Negative effect
Regulator Target Regulation
  clpP comX negative effect
  comX late competence genes positive effect
  comX late competence genes positive effect
  comR comX positive effect
  comR comS positive effect
  comS comX positive effect
  comS comS positive effect
  amiD comS positive effect
  pptA comS positive effect
  amiE comS positive effect
  eeP comS positive effect
  amiA3 comS positive effect
  pptB comS positive effect
  amiF comS positive effect
  amiC comS positive effect
  mecA comX negative effect
  clpC comX negative effect

Sequence

Protein


Download         Length: 196 a.a.        Molecular weight: 21577.62 Da        Isoelectric Point: 4.4829

>NTDB_id=298 STER_RS01925 WP_002949732.1 347698..348288(+) (clpP) [Streptococcus thermophilus LMD-9]
MIPVVIEQTSRGERSYDIYSRLLKDRIIMLTGPIEDNMANSIIAQLLFLDAQDNTKDIYLYVNTPGGSVSAGLAIVDTMN
FIKSDVQTIVMGMAASMGTIIASSGTKGKRFMLPNAEYMIHQPMGGTGGGTQQTDMAIAAEHLLKTRNNLEQILADNSGQ
PIEKVHVDAERDNWMSAQETLEYGFIDEIMTNNQLK

Nucleotide


Download         Length: 591 bp        

>NTDB_id=298 STER_RS01925 WP_002949732.1 347698..348288(+) (clpP) [Streptococcus thermophilus LMD-9]
ATGATTCCGGTAGTTATTGAACAAACATCACGTGGTGAACGTTCTTATGACATTTACTCACGTTTGCTCAAGGATCGTAT
TATCATGTTAACAGGTCCTATAGAAGATAATATGGCAAACTCAATTATCGCTCAACTCTTGTTCTTGGATGCTCAAGACA
ATACAAAAGATATCTATCTGTATGTTAATACACCTGGTGGGTCAGTTTCAGCAGGCCTTGCCATTGTTGATACAATGAAC
TTCATCAAGTCTGATGTTCAAACCATCGTTATGGGGATGGCAGCATCAATGGGTACAATTATCGCTTCAAGCGGTACCAA
AGGTAAACGTTTCATGTTGCCAAATGCAGAATACATGATTCACCAACCAATGGGTGGTACTGGTGGTGGTACTCAACAAA
CAGATATGGCTATCGCTGCTGAACACTTGCTCAAGACTCGTAATAACTTGGAGCAAATCTTGGCTGATAATTCTGGTCAG
CCAATTGAAAAGGTTCATGTCGATGCTGAACGTGATAATTGGATGAGTGCCCAAGAAACACTTGAATATGGCTTCATTGA
TGAAATCATGACCAACAACCAATTAAAATAA

Domains

Predicted by InterproScan.

Clp protease (CLP_protease)

(11-192)


Secondary structure

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



3D structure

Source ID Structure
  AlphaFold DB Q5M5U4

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
  clpP Streptococcus thermophilus LMG 18311

100

100

1
  clpP Streptococcus pneumoniae R6

92.821

99.49

0.923
  clpP Streptococcus pneumoniae TIGR4

92.821

99.49

0.923
  clpP Streptococcus pneumoniae Rx1

92.821

99.49

0.923
  clpP Streptococcus pneumoniae D39

92.821

99.49

0.923
  clpP Streptococcus pyogenes JRS4

89.796

100

0.898
  clpP Streptococcus pyogenes MGAS315

89.796

100

0.898
  clpP Streptococcus mutans UA159

87.755

100

0.878
  clpP Lactococcus lactis subsp. lactis strain DGCC12653

87.245

100

0.872
  clpP Lactococcus lactis subsp. cremoris KW2

86.735

100

0.867
  clpP Bacillus subtilis subsp. subtilis str. 168

59.184

100

0.592
  clpP Campylobacter jejuni subsp. jejuni NCTC 11168 = ATCC 700819

58.549

98.469

0.577

Multiple sequence alignment    



References

[1] Astrid Wahl et al. (2014) Control of natural transformation in salivarius Streptococci through specific degradation of σX by the MecA-ClpCP protease complex. Journal of Bacteriology 196(15):2807-16. [PMID: 24837292]
[2] Céline Boutry et al. (2012) Adaptor protein MecA is a negative regulator of the expression of late competence genes in Streptococcus thermophilus. Journal of Bacteriology 194(7):1777-88. [PMID: 22287513]
[3] Truls Johan Biørnstad et al. (2011) ClpC acts as a negative regulator of competence in Streptococcus thermophilus. Microbiology (Reading, England) 157(Pt 6):1676-1684. [PMID: 21436217]