Detailed information    

experimental Experimentally validated

Overview

Name   clpP   Type   Regulator
Locus tag   SPD_RS03495 Genome accession   NC_008533
Coordinates   668968..669558 (+) Length   196 a.a.
NCBI ID   WP_000613477.1    Uniprot ID   A0A064BX72
Organism   Streptococcus pneumoniae D39     
Function   degradation of ComX; degradation of ComW   
Competence regulation

Function

Degradation of the ComX protein depends largely on a ClpEP protease complex. ComW is also a target of the Clp machinery and was shown to be degraded by ClpCP.


Genomic Context

Location: 663968..674558
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  SPD_RS03465 (SPD_0644) - 664354..664809 (-) 456 WP_001861299.1 8-oxo-dGTP diphosphatase -
  SPD_RS03470 (SPD_0645) - 664829..666004 (-) 1176 WP_000680053.1 NAD(P)/FAD-dependent oxidoreductase -
  SPD_RS03475 (SPD_0646) - 666063..666908 (-) 846 WP_000219939.1 DegV family protein -
  SPD_RS03480 (SPD_0647) - 667033..667590 (+) 558 WP_000004139.1 TetR/AcrR family transcriptional regulator -
  SPD_RS03485 (SPD_0648) - 667609..668076 (+) 468 WP_000136976.1 deoxycytidylate deaminase -
  SPD_RS03490 (SPD_0649) upp 668165..668794 (+) 630 WP_000515974.1 uracil phosphoribosyltransferase -
  SPD_RS03495 (SPD_0650) clpP 668968..669558 (+) 591 WP_000613477.1 ATP-dependent Clp protease proteolytic subunit ClpP Regulator
  SPD_RS03505 (SPD_0651) - 669637..669885 (+) 249 WP_000462126.1 YlbG family protein -
  SPD_RS03510 (SPD_0652) - 669987..671147 (+) 1161 WP_000726149.1 ABC transporter substrate-binding protein -
  SPD_RS03515 (SPD_0653) - 671415..672284 (+) 870 WP_000941426.1 branched-chain amino acid ABC transporter permease -
  SPD_RS03520 (SPD_0654) - 672288..673244 (+) 957 WP_000662293.1 branched-chain amino acid ABC transporter permease -
  SPD_RS03525 (SPD_0655) - 673244..674008 (+) 765 WP_001186003.1 ABC transporter ATP-binding protein -

Regulatory network

Positive effect      
Negative effect
Regulator Target Regulation
  clpP comX/comX1 negative effect
  comX/comX1 late competence genes positive effect
  comX/comX2 late competence genes positive effect
  comX/comX1 late competence genes positive effect
  comX/comX2 late competence genes positive effect
  comW comX/comX2 positive effect
  comW comX/comX1 positive effect
  mecA comW negative effect
  clpC comW negative effect
  comE comW positive effect
  clpP comW negative effect
  clpE comX/comX2 negative effect
  clpE comX/comX1 negative effect
  clpP comX/comX2 negative effect
  comE comX/comX2 positive effect
  comE comM positive effect
  comE comA positive effect
  comE comB positive effect
  comE comE positive effect
  comE comX/comX1 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
  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: 196 a.a.        Molecular weight: 21358.36 Da        Isoelectric Point: 4.4910

>NTDB_id=246 SPD_RS03495 WP_000613477.1 668968..669558(+) (clpP) [Streptococcus pneumoniae D39]
MIPVVIEQTSRGERSYDIYSRLLKDRIIMLTGPVEDNMANSVIAQLLFLDAQDSTKDIYLYVNTPGGSVSAGLAIVDTMN
FIKADVQTIVMGMAASMGTVIASSGAKGKRFMLPNAEYMIHQPMGGTGGGTQQTDMAIAAEHLLKTRNTLEKILAENSGQ
SMEKVHADAERDNWMSAQETLEYGFIDEIMANNSLN

Nucleotide


Download         Length: 591 bp        

>NTDB_id=246 SPD_RS03495 WP_000613477.1 668968..669558(+) (clpP) [Streptococcus pneumoniae D39]
ATGATTCCTGTAGTTATTGAACAAACAAGCCGTGGAGAACGTTCTTACGATATTTACTCACGTCTTCTCAAAGACCGCAT
CATTATGCTGACAGGTCCGGTTGAAGACAATATGGCTAACTCTGTTATTGCCCAACTGCTTTTCTTGGATGCCCAAGATA
GTACAAAAGATATTTACCTTTATGTCAATACACCAGGTGGTTCTGTTTCAGCTGGTTTGGCAATCGTAGATACCATGAAC
TTTATCAAGGCAGATGTCCAAACCATTGTTATGGGAATGGCTGCATCTATGGGAACAGTCATCGCATCAAGTGGAGCAAA
AGGCAAACGTTTCATGCTTCCAAATGCTGAATACATGATTCACCAACCAATGGGCGGTACAGGTGGTGGTACCCAACAAA
CTGATATGGCTATCGCTGCAGAACACTTGCTCAAAACTCGTAATACCTTGGAAAAAATCTTGGCTGAAAATTCAGGTCAG
TCAATGGAAAAAGTCCATGCAGATGCAGAACGTGATAACTGGATGAGCGCCCAGGAAACACTTGAATATGGCTTTATTGA
TGAAATTATGGCCAACAATTCATTGAACTAA

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 A0A064BX72

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 pneumoniae Rx1

100

100

1
  clpP Streptococcus pneumoniae R6

100

100

1
  clpP Streptococcus pneumoniae TIGR4

100

100

1
  clpP Streptococcus thermophilus LMD-9

92.821

99.49

0.923
  clpP Streptococcus thermophilus LMG 18311

92.821

99.49

0.923
  clpP Streptococcus pyogenes JRS4

90.769

99.49

0.903
  clpP Streptococcus pyogenes MGAS315

90.769

99.49

0.903
  clpP Streptococcus mutans UA159

85.714

100

0.857
  clpP Lactococcus lactis subsp. lactis strain DGCC12653

85.128

99.49

0.847
  clpP Lactococcus lactis subsp. cremoris KW2

84.615

99.49

0.842
  clpP Bacillus subtilis subsp. subtilis str. 168

58.854

97.959

0.577
  clpP Campylobacter jejuni subsp. jejuni NCTC 11168 = ATCC 700819

58.031

98.469

0.571

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]