Detailed information    

experimental Experimentally validated

Overview

Name   clpP   Type   Regulator
Locus tag   BSU_34540 Genome accession   NC_000964
Coordinates   3546234..3546827 (+) Length   197 a.a.
NCBI ID   NP_391334.1    Uniprot ID   P80244
Organism   Bacillus subtilis subsp. subtilis str. 168     
Function   degradation of ComK; degradation of DegU   
Competence regulation

Function

ComK is targeted by the adaptor protein MecA and degraded in a complex with ClpC and ClpP. Preferential degradation of DegU-P by ClpCP, but not of unphosphorylated DegU, was reported.


Genomic Context

Location: 3541234..3551827
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  BSU_34490 (BSU34490) psmA 3541488..3541823 (+) 336 NP_391329.1 sodium / proton antiporter subunit A -
  BSU_34500 (BSU34500) psmB 3541823..3542143 (+) 321 NP_391330.1 sodium-proton two component antiporter subunit -
  BSU_34510 (BSU34510) yvdQ 3542179..3542691 (-) 513 NP_391331.1 hypothetical protein -
  BSU_34520 (BSU34520) cotNP 3542943..3544286 (-) 1344 NP_391332.1 spore coat protein; putative oxidoreductase -
  BSU_34530 (BSU34530) cotR 3544642..3545604 (+) 963 NP_391333.1 spore coat lipolytic enzyme -
  BSU_34540 (BSU34540) clpP 3546234..3546827 (+) 594 NP_391334.1 ATP-dependent Clp protease proteolytic subunit; Maxwell's demon Regulator
  BSU_34550 (BSU34550) mdxM 3546873..3547553 (-) 681 NP_391335.1 bifunctional beta-phosphoglucomutase / glucose-1-phosphate phosphodismutase -
  BSU_34560 (BSU34560) mdxL 3547550..3549235 (-) 1686 NP_391336.1 oligo-1,4-1,6-alpha-glucosidase (sucrase-maltase-isomaltase) -
  BSU_34570 (BSU34570) mdxK 3549228..3551501 (-) 2274 NP_391337.1 maltose phosphorylase -

Regulatory network

Positive effect      
Negative effect
Regulator Target Regulation
  clpP comK negative effect
  comK comK positive effect
  comK late competence genes positive effect
  codY comK negative effect
  mecA comK negative effect
  kre comK negative effect
  abrB comK negative effect
  comS comK positive effect
  spo0A comK positive effect
  rok comK negative effect
  degU comK positive effect
  clpC comK negative effect
  med comK positive effect
  spo0A comK negative effect
  comK late competence genes positive effect
  clpP degU negative effect
  abrB rok negative effect
  spo0A abrB negative effect
  comA comS positive effect
  spo0A rok negative effect
  sinR spo0A negative effect
  sinR rok negative effect
  sinR degU negative effect
  degQ degU positive effect
  clpC degU negative effect
  degS degU positive effect
  rapC comA negative effect
  rapF comA negative effect
  comP comA positive effect
  sinI sinR negative effect
  phrC rapC negative effect
  phrF rapF negative effect
  comX comP positive effect
  comQ comX positive effect

Sequence

Protein


Download         Length: 197 a.a.        Molecular weight: 21682.00 Da        Isoelectric Point: 4.9416

>NTDB_id=86 BSU_34540 NP_391334.1 3546234..3546827(+) (clpP) [Bacillus subtilis subsp. subtilis str. 168]
MNLIPTVIEQTNRGERAYDIYSRLLKDRIIMLGSAIDDNVANSIVSQLLFLAAEDPEKEISLYINSPGGSITAGMAIYDT
MQFIKPKVSTICIGMAASMGAFLLAAGEKGKRYALPNSEVMIHQPLGGAQGQATEIEIAAKRILLLRDKLNKVLAERTGQ
PLEVIERDTDRDNFKSAEEALEYGLIDKILTHTEDKK

Nucleotide


Download         Length: 594 bp        

>NTDB_id=86 BSU_34540 NP_391334.1 3546234..3546827(+) (clpP) [Bacillus subtilis subsp. subtilis str. 168]
ATGAATTTAATACCTACAGTCATTGAACAAACGAACCGCGGGGAAAGAGCGTATGACATTTATTCTCGTCTATTAAAGGA
TCGTATCATCATGCTTGGATCTGCGATTGATGACAACGTTGCGAACTCCATCGTGTCACAGCTTTTATTCTTAGCAGCAG
AAGACCCTGAAAAAGAAATTTCTCTTTACATCAACAGCCCGGGCGGCTCTATTACAGCCGGTATGGCGATCTATGATACC
ATGCAGTTTATTAAGCCGAAGGTATCTACAATTTGTATCGGTATGGCTGCGTCAATGGGCGCGTTCCTGCTTGCAGCCGG
CGAAAAAGGCAAACGCTATGCGCTTCCAAACAGTGAAGTCATGATTCACCAGCCTCTTGGCGGTGCGCAAGGTCAAGCGA
CAGAAATTGAAATTGCTGCGAAACGCATTCTCTTGCTTCGCGACAAATTAAACAAAGTCCTAGCTGAACGTACTGGCCAG
CCGCTTGAAGTGATCGAACGCGACACAGACCGTGATAACTTCAAGTCTGCTGAAGAAGCGCTTGAATACGGCCTGATTGA
CAAAATTTTGACTCACACAGAAGACAAAAAGTAA

Domains

Predicted by InterproScan.

Clp protease (CLP_protease)

(13-192)


Secondary structure

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



3D structure

Source ID Structure
  PDB 3KTG
  PDB 3KTH
  PDB 3KTI
  PDB 3KTJ
  PDB 3KTK
  PDB 3TT6
  PDB 3TT7
  PDB 7FEP
  PDB 7FEQ
  PDB 7FER
  PDB 7FES
  PDB 7P80
  PDB 7P81

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 Campylobacter jejuni subsp. jejuni NCTC 11168 = ATCC 700819

68.617

96.907

0.665
  clpP Streptococcus thermophilus LMD-9

59.184

100

0.592
  clpP Streptococcus thermophilus LMG 18311

59.184

100

0.592
  clpP Streptococcus pneumoniae Rx1

58.854

97.959

0.577
  clpP Streptococcus pneumoniae D39

58.854

97.959

0.577
  clpP Streptococcus pneumoniae R6

58.854

97.959

0.577
  clpP Streptococcus pneumoniae TIGR4

58.854

97.959

0.577
  clpP Streptococcus pyogenes JRS4

57.143

100

0.571
  clpP Streptococcus pyogenes MGAS315

57.143

100

0.571
  clpP Lactococcus lactis subsp. cremoris KW2

57.895

96.447

0.558
  clpP Streptococcus mutans UA159

54.822

100

0.548
  clpP Lactococcus lactis subsp. lactis strain DGCC12653

57.368

95.477

0.548

Multiple sequence alignment    



References

[1] Denise Dittmar et al. (2020) Complementation studies with human ClpP in Bacillus subtilis. Biochimica Et Biophysica Acta. Molecular Cell Research 1867(9):118744. [PMID: 32442436]
[2] Byung-Gil Lee et al. (2011) Structural insights into the conformational diversity of ClpP from Bacillus subtilis. Molecules And Cells 32(6):589-95. [PMID: 22080375]
[3] Mitsuo Ogura et al. (2010) Autoregulation of the Bacillus subtilis response regulator gene degU is coupled with the proteolysis of DegU-P by ClpCP. Molecular Microbiology 75(5):1244-59. [PMID: 20070525]
[4] T Msadek et al. (1998) ClpP of Bacillus subtilis is required for competence development, motility, degradative enzyme synthesis, growth at high temperature and sporulation. Molecular Microbiology 27(5):899-914. [PMID: 9535081]
[5] K Turgay et al. (1997) Biochemical characterization of a molecular switch involving the heat shock protein ClpC, which controls the activity of ComK, the competence transcription factor of Bacillus subtilis. Genes & Development 11(1):119-28. [PMID: 9000055]
[6] L Kong et al. (1994) Regulation of competence-specific gene expression by Mec-mediated protein-protein interaction in Bacillus subtilis. Proceedings of The National Academy of Sciences of The United States of America 91(13):5793-7. [PMID: 8016067]