Detailed information    

experimental Experimentally validated

Overview

Name   clpE   Type   Regulator
Locus tag   SMU_RS02690 Genome accession   NC_004350
Coordinates   525134..527395 (-) Length   753 a.a.
NCBI ID   WP_002263569.1    Uniprot ID   Q8DVD0
Organism   Streptococcus mutans UA159     
Function   repress competence development (at the early growth phase)   
Competence regulation

Function

If the transformation is carried out at the early growth phase, both ClpP protease and ClpX ATPase are needed for competence. In contrast, we found that both ClpC and ClpE negatively affect competence. We also found that if the transformation is carried out at the mid-logarithmic growth phase ClpX is still required for competence, but ClpP negatively affects competence.


Genomic Context

Location: 520134..532395
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  SMU_RS02675 (SMU.558) ileS 520634..523426 (+) 2793 WP_002262075.1 isoleucine--tRNA ligase -
  SMU_RS02680 (SMU.560c) - 524199..524501 (-) 303 WP_002263571.1 DUF1827 family protein -
  SMU_RS02685 (SMU.561c) - 524568..525023 (-) 456 WP_002263570.1 NUDIX hydrolase -
  SMU_RS02690 (SMU.562) clpE 525134..527395 (-) 2262 WP_002263569.1 ATP-dependent Clp protease ATP-binding subunit Regulator
  SMU_RS02695 (SMU.563) argF 527652..528632 (+) 981 WP_002263568.1 ornithine carbamoyltransferase -
  SMU_RS02700 (SMU.564) - 528709..528939 (+) 231 WP_002263567.1 YkuJ family protein -
  SMU_RS02710 (SMU.567) - 530592..531278 (+) 687 WP_002263566.1 amino acid ABC transporter permease -
  SMU_RS02715 (SMU.568) - 531278..532012 (+) 735 WP_002263565.1 amino acid ABC transporter ATP-binding protein -

Sequence

Protein


Download         Length: 753 a.a.        Molecular weight: 83733.90 Da        Isoelectric Point: 5.0597

>NTDB_id=378 SMU_RS02690 WP_002263569.1 525134..527395(-) (clpE) [Streptococcus mutans UA159]
MLCQNCKLNEATIHLYANVNGQQKQIDLCQNCYQIMKTDPENGPLNHLSQQNSSSINPFFDDFFGDLNNFRAFNNQDLPN
TPPTQAGGGNGNGGNNRRPGGPQQQASQKPNGLLEEFGINLTDIARKGEIDPVIGRDEEITRVIEILNRRTKNNPVLIGE
PGVGKTAVVEGLAQKIVDGDVPQKLHGKNVIRLDVVSLVQGTGIRGQFEERMQKLMEEIRQRQDVILFIDEIHEIVGAGS
AGDGNMDAGNILKPALARGELQLVGATTLNEYRIIEKDAALERRMQPVKVDEPSVAETITILKGIQPKYEDYHHVKYTDE
AIEAAANLSNRYIQDRFLPDKAIDLLDEAGSKMNLTLNFVDPKEIDHRLIEAENLKAQATRDEDYEKAAYFRDQIAKYKE
MQSAKLDKENTPVITEKNIEVIVEQKTNIPVGELKEKEQSQLIHLADDLKTRVIGQDAAVDKIAKAIRRNRVGLGTPNRP
IGSFLFVGPTGVGKTELSKQLAIELFGSEDSMIRFDMSEYMEKHAVAKLVGAPPGYVGYEEAGQLTEKVRRNPYSLILLD
EVEKAHPDVMHMFLQVLDDGRLTDGQGRTVSFKDTIIIMTSNAGTGKSEANVGFGASREGRTNSVLGELGNFFSPEFMNR
FDGIIEFQALSKDNLLQIVSLMLDDVNQRLAVNAIHLDVTDKVKEKLVDLGYDPKMGARPLRRTIQEHIEDAITDFYLEH
PEQKELKAIMTSNGKIVIKASNKVETVTKATSD

Nucleotide


Download         Length: 2262 bp        

>NTDB_id=378 SMU_RS02690 WP_002263569.1 525134..527395(-) (clpE) [Streptococcus mutans UA159]
ATGCTCTGTCAAAATTGTAAATTAAATGAAGCGACTATTCATCTATATGCTAATGTTAATGGTCAGCAAAAGCAGATTGA
CCTTTGTCAAAATTGTTATCAAATTATGAAAACAGATCCTGAAAATGGACCTTTAAATCATCTTTCGCAACAAAATTCAT
CATCCATCAATCCTTTCTTTGATGATTTCTTTGGCGATTTGAATAATTTTCGTGCCTTTAATAATCAAGATCTGCCAAAC
ACACCGCCAACACAAGCTGGCGGCGGCAATGGCAACGGAGGCAATAATCGCCGTCCCGGCGGACCTCAGCAACAGGCCTC
CCAAAAGCCAAATGGGTTGCTTGAAGAGTTTGGTATTAATTTAACAGATATTGCGCGCAAGGGTGAAATTGATCCTGTTA
TTGGCCGTGATGAAGAAATCACAAGGGTTATCGAAATTCTCAACCGTCGCACAAAGAATAATCCTGTTCTTATTGGAGAA
CCGGGTGTCGGTAAAACTGCTGTTGTCGAAGGACTGGCGCAAAAAATTGTTGATGGTGATGTTCCACAAAAATTACATGG
AAAAAATGTCATTCGTCTGGACGTCGTCAGCCTTGTTCAAGGTACTGGTATTCGAGGCCAATTTGAAGAACGGATGCAAA
AGCTAATGGAAGAAATCCGTCAACGTCAAGATGTTATTCTTTTCATTGATGAAATTCATGAAATTGTTGGTGCTGGTTCT
GCTGGCGATGGCAATATGGATGCCGGAAATATTTTAAAACCCGCTTTGGCACGCGGTGAGCTTCAACTTGTTGGTGCTAC
AACACTCAATGAATATCGGATTATTGAAAAAGATGCCGCTTTGGAACGTCGAATGCAACCCGTAAAAGTTGATGAACCTA
GTGTTGCAGAAACCATAACGATTCTTAAAGGTATTCAGCCCAAATATGAAGATTACCATCATGTAAAGTATACAGATGAA
GCGATTGAAGCTGCTGCAAATCTTTCAAATCGTTACATTCAGGATCGTTTCTTACCTGATAAGGCTATTGATCTTCTAGA
TGAAGCTGGCTCTAAAATGAATTTAACACTTAACTTTGTAGATCCTAAAGAAATTGATCACCGCTTGATTGAAGCCGAAA
ATCTAAAAGCTCAAGCAACCCGTGATGAGGATTATGAAAAAGCAGCTTACTTCCGTGATCAAATTGCCAAATACAAGGAA
ATGCAATCCGCTAAACTTGATAAGGAGAATACTCCTGTTATTACAGAAAAAAATATTGAAGTAATTGTCGAGCAAAAGAC
CAATATTCCTGTTGGTGAATTAAAAGAAAAGGAACAATCACAATTAATTCATCTCGCTGACGATCTTAAAACGCGTGTTA
TTGGACAGGATGCTGCTGTTGATAAAATTGCTAAAGCTATTCGCCGCAATCGTGTTGGACTAGGCACTCCAAATCGGCCA
ATTGGTTCTTTCCTTTTTGTCGGCCCTACTGGTGTTGGTAAAACGGAACTCTCTAAACAATTAGCCATTGAGCTTTTTGG
TTCTGAAGATAGTATGATTCGTTTCGATATGAGTGAATACATGGAAAAACATGCTGTGGCTAAACTTGTTGGTGCACCTC
CGGGATATGTCGGTTATGAAGAAGCTGGTCAGTTAACCGAAAAAGTTCGTCGCAACCCTTATTCATTGATCTTACTCGAT
GAAGTTGAAAAAGCTCACCCAGATGTCATGCATATGTTCTTACAAGTGCTTGATGATGGTCGTCTAACGGATGGGCAAGG
ACGCACTGTCAGCTTTAAGGATACTATTATTATCATGACCTCAAATGCTGGTACAGGGAAATCTGAAGCTAATGTTGGTT
TTGGTGCCAGTCGAGAAGGCCGTACTAATTCTGTTCTAGGCGAATTGGGTAACTTCTTTAGCCCTGAATTTATGAACCGT
TTTGATGGTATCATCGAATTTCAGGCTTTAAGCAAGGATAATCTTCTTCAAATTGTTTCTCTCATGCTGGATGACGTTAA
TCAACGTTTAGCTGTTAATGCTATTCACCTTGATGTAACTGATAAAGTTAAAGAAAAATTGGTTGATCTCGGTTATGATC
CTAAAATGGGAGCAAGACCGCTGCGTCGTACTATCCAAGAACATATTGAAGATGCTATTACGGATTTCTACTTAGAGCAT
CCTGAACAAAAAGAACTAAAAGCTATTATGACAAGCAATGGCAAAATTGTTATCAAGGCTTCTAACAAAGTCGAGACGGT
TACCAAAGCAACTTCAGATTAA

Domains

Predicted by InterproScan.

AAA lid domain (AAA_lid_9)

(294-391)

C-terminal, D2-small domain, of ClpB protein (ClpB_D2-small)

(650-721)

AAA domain (Cdc48 subfamily) (AAA_2)

(479-642)

ATPase family associated with various cellular activities (AAA) (AAA)

(156-275)


Secondary structure

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



3D structure

Source ID Structure
  AlphaFold DB Q8DVD0

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
  clpE Streptococcus pneumoniae TIGR4

82.754

99.336

0.822
  clpE Streptococcus pneumoniae D39

82.754

99.336

0.822
  clpE Streptococcus pneumoniae R6

82.754

99.336

0.822
  clpE Streptococcus pneumoniae Rx1

82.754

99.336

0.822
  clpC Lactococcus lactis subsp. cremoris KW2

76.026

100

0.767
  clpC Bacillus subtilis subsp. subtilis str. 168

53.313

86.189

0.459
  clpC Lactococcus lactis subsp. lactis strain DGCC12653

47.846

86.321

0.413
  clpC Streptococcus pneumoniae D39

49.355

82.337

0.406
  clpC Streptococcus pneumoniae Rx1

49.355

82.337

0.406
  clpC Streptococcus pneumoniae TIGR4

49.194

82.337

0.405
  clpC Streptococcus thermophilus LMD-9

47.764

83.134

0.397
  clpC Streptococcus thermophilus LMG 18311

47.444

83.134

0.394
  clpC Streptococcus mutans UA159

47.011

82.205

0.386

Multiple sequence alignment    



References

[1] Satya D Pandey et al. (2022) Clp ATPases differentially affect natural competence development in Streptococcus mutans. MicrobiologyOpen 11(3):e1288. [PMID: 35765180]