Detailed information    

experimental Experimentally validated

Overview

Name   clpC   Type   Regulator
Locus tag   KW2_RS02615 Genome accession   NC_022369
Coordinates   515183..517429 (+) Length   748 a.a.
NCBI ID   WP_021036805.1    Uniprot ID   -
Organism   Lactococcus lactis subsp. cremoris KW2     
Function   degradation of ComX   
Competence regulation

Function

MecA, ClpC and ClpP are involved in the proteolytic degradation of ComX, thereby play a significant role in the negative control of competence in strain KW2.


Genomic Context

Location: 510183..522429
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  KW2_RS02595 (kw2_0521) - 510884..512263 (+) 1380 WP_021036802.1 MFS transporter -
  KW2_RS02600 (kw2_0522) - 512419..513288 (+) 870 WP_021036803.1 zinc ribbon domain-containing protein -
  KW2_RS02605 (kw2_0523) - 513298..514563 (+) 1266 WP_021036804.1 zinc ribbon domain-containing protein -
  KW2_RS02610 (kw2_0524) - 514793..515137 (+) 345 WP_011834562.1 hypothetical protein -
  KW2_RS02615 (kw2_0525) clpC 515183..517429 (+) 2247 WP_021036805.1 ATP-dependent Clp protease ATP-binding subunit Regulator
  KW2_RS02620 (kw2_0526) - 517565..518035 (-) 471 WP_011834564.1 Rrf2 family transcriptional regulator -
  KW2_RS02625 (kw2_0527) gap 518261..519274 (+) 1014 WP_011834565.1 type I glyceraldehyde-3-phosphate dehydrogenase -
  KW2_RS02630 (kw2_0528) def 519499..520134 (-) 636 WP_011675571.1 peptide deformylase -
  KW2_RS02635 (kw2_0529) - 520282..520743 (+) 462 WP_338033618.1 RNA pyrophosphohydrolase -

Regulatory network

Positive effect      
Negative effect
Regulator Target Regulation
  clpC comX negative effect
  comX comGG positive effect
  comX comEA positive effect
  comX ssbB positive effect
  comX comGD positive effect
  comX dprA positive effect
  comX comFA positive effect
  comX coiA positive effect
  comX comGB positive effect
  comX recA positive effect
  comX comFC positive effect
  comX comGE positive effect
  comX comGF positive effect
  comX comEC positive effect
  comX comGA positive effect
  comX comGC positive effect
  mecA comX negative effect
  clpP comX negative effect

Sequence

Protein


Download         Length: 748 a.a.        Molecular weight: 83221.02 Da        Isoelectric Point: 4.7590

>NTDB_id=601 KW2_RS02615 WP_021036805.1 515183..517429(+) (clpC) [Lactococcus lactis subsp. cremoris KW2]
MLCQNCNINEATIHLYTSVNGQKKQIDLCQNCYQIMKSGGQEALFGAGNASNGNSDEPFNPFNDIFSALQGQDFNGAASN
QTPPTQTGGRGPRGPQNPRAKQPKGMLEEFGINITESARRGEIDPVIGRDEEIKRVIEILNRRTKNNPVLIGEPGVGKTA
VVEGLAQKIVDGDVPQKLQNKEVIRLDVVSLVQGTGIRGQFEERMQKLMDEIRKRNDVIMFIDEIHEIVGAGSAGDGNMD
AGNILKPALARGELQLVGATTLNEYRIIEKDAALERRMQPVKVDEPSVDETITILRGIQARYEDYHHVKYTDEAIEAAAH
LSNRYIQDRFLPDKAIDLLDESGSKKNLTLKFVDPEDINRRIADAENKKNEATKAEDFEKAAHFRDQISKLRELQKQEVT
DEDMPVITEKDIEQIVEQKTQIPVGDLKEKEQTQLINLADDLKAHVIGQDEAVDKISKAIRRSRVGLGKPNRPIGSFLFV
GPTGVGKTELAKQLAKELFGSSESMIRFDMSEYMEKHSVAKLIGAPPGYVGYEEAGQLTERVRRNPYSLILLDEIEKAHP
DVMHMFLQILEDGRLTDAQGRTVSFKDSLIIMTSNAGTGKVEASVGFGAAREGRTKSVLGQLGDFFSPEFMNRFDGIIEF
SALSKENLLKIVDLMLDEVNEQIGRNDIHLSVTQAAKEKLVDLGYNPAMGARPLRRTIQENIEDSIADFYIEHPEYKQLV
ADLIDDKIVISNQTQETAETTDEEVPAE

Nucleotide


Download         Length: 2247 bp        

>NTDB_id=601 KW2_RS02615 WP_021036805.1 515183..517429(+) (clpC) [Lactococcus lactis subsp. cremoris KW2]
ATGCTTTGTCAAAATTGTAATATTAATGAAGCGACGATTCACCTTTACACAAGTGTAAATGGTCAGAAAAAACAAATTGA
TTTGTGCCAAAACTGTTATCAAATTATGAAATCTGGTGGTCAAGAAGCTTTATTTGGCGCAGGAAATGCCTCAAATGGAA
ATTCTGATGAACCCTTTAATCCGTTTAACGATATCTTCAGTGCTTTGCAAGGTCAAGATTTTAATGGGGCAGCAAGTAAT
CAAACTCCCCCAACACAAACGGGTGGACGTGGTCCGCGTGGTCCACAAAATCCTCGGGCAAAACAACCTAAAGGGATGCT
AGAAGAATTCGGTATTAATATCACCGAATCAGCTCGTCGTGGCGAAATTGACCCAGTGATTGGTCGTGATGAAGAAATCA
AACGTGTTATTGAGATTTTAAATCGCAGAACTAAGAATAATCCAGTGCTAATTGGTGAACCTGGTGTTGGTAAAACAGCA
GTTGTTGAAGGTTTAGCACAAAAAATAGTCGATGGCGATGTGCCACAAAAACTACAAAATAAAGAAGTCATTCGTCTTGA
CGTGGTTTCTCTTGTTCAAGGAACAGGAATCCGTGGACAATTTGAAGAACGGATGCAAAAATTAATGGATGAAATCAGAA
AACGTAATGATGTCATTATGTTTATTGATGAAATTCATGAAATTGTCGGTGCTGGTTCTGCTGGCGACGGCAATATGGAT
GCAGGTAATATCCTAAAACCGGCTCTTGCGCGTGGTGAGCTTCAATTGGTTGGAGCAACAACACTCAACGAATATCGTAT
TATTGAAAAAGATGCGGCACTTGAACGTCGGATGCAACCGGTCAAAGTAGATGAACCATCAGTTGATGAAACAATTACGA
TTTTGCGAGGCATTCAAGCACGTTATGAAGATTATCATCATGTGAAATACACTGATGAGGCTATTGAAGCAGCTGCTCAT
TTGTCAAATCGTTACATTCAAGACCGATTCTTACCAGATAAAGCCATCGACCTTTTAGATGAATCTGGTTCTAAGAAAAA
TCTGACTTTGAAATTTGTTGACCCTGAGGATATCAATCGTCGAATTGCTGATGCGGAAAATAAGAAAAATGAAGCAACTA
AGGCTGAAGATTTTGAAAAAGCCGCTCATTTCCGTGACCAAATCAGTAAACTTCGTGAATTGCAAAAACAAGAAGTTACT
GACGAAGATATGCCAGTCATCACTGAAAAAGATATTGAACAAATTGTTGAACAAAAAACACAAATTCCAGTTGGGGATTT
GAAAGAAAAAGAACAAACTCAGTTGATTAATTTGGCTGATGATTTGAAAGCACATGTGATTGGTCAAGATGAAGCAGTAG
ATAAAATATCAAAAGCAATTCGTCGCTCACGTGTAGGTCTTGGCAAGCCTAACCGTCCAATTGGTTCTTTCCTTTTTGTT
GGTCCAACAGGTGTAGGTAAAACCGAACTTGCTAAACAACTGGCTAAAGAATTATTTGGTTCAAGTGAGAGCATGATTCG
TTTTGACATGTCGGAATACATGGAAAAACATTCTGTGGCCAAATTGATTGGTGCGCCTCCAGGATATGTAGGTTATGAAG
AAGCGGGTCAATTGACCGAACGTGTTCGTCGTAATCCATACAGTTTGATTTTGCTTGATGAAATTGAAAAAGCTCATCCT
GATGTCATGCACATGTTCTTACAAATTCTTGAAGATGGCCGTCTGACAGATGCACAAGGACGGACAGTATCCTTCAAAGA
TAGTTTGATTATCATGACTTCAAATGCCGGAACTGGTAAAGTTGAAGCTTCTGTTGGATTTGGTGCAGCCCGCGAAGGAC
GAACTAAATCAGTGCTTGGTCAACTTGGTGATTTCTTTAGCCCTGAATTCATGAACCGTTTTGACGGAATTATTGAATTC
TCTGCTTTAAGCAAAGAAAATCTCCTTAAAATTGTTGATTTAATGCTTGATGAAGTCAATGAACAAATTGGACGTAATGA
TATTCATCTTAGTGTCACTCAAGCCGCTAAAGAAAAATTAGTGGACTTAGGATATAATCCTGCAATGGGTGCAAGACCTC
TTCGGAGAACAATTCAAGAAAATATTGAAGATTCAATTGCTGATTTCTACATTGAACATCCTGAATATAAACAATTGGTA
GCTGATTTGATTGATGATAAAATTGTCATTTCTAATCAAACCCAAGAAACAGCAGAAACTACTGACGAAGAAGTTCCTGC
TGAATAA

Domains

Predicted by InterproScan.

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

(149-268)

AAA domain (Cdc48 subfamily) (AAA_2)

(472-635)

AAA lid domain (AAA_lid_9)

(287-386)

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

(643-713)


Secondary structure

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



3D structure

Source ID Structure

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 mutans UA159

76.026

100

0.767
  clpE Streptococcus pneumoniae TIGR4

76.839

97.606

0.75
  clpE Streptococcus pneumoniae R6

76.839

97.606

0.75
  clpE Streptococcus pneumoniae D39

76.839

97.606

0.75
  clpE Streptococcus pneumoniae Rx1

76.839

97.606

0.75
  clpC Bacillus subtilis subsp. subtilis str. 168

48.664

95.053

0.463
  clpC Lactococcus lactis subsp. lactis strain DGCC12653

47.023

87.567

0.412
  clpC Streptococcus pneumoniae TIGR4

46.955

83.422

0.392
  clpC Streptococcus pneumoniae Rx1

46.955

83.422

0.392
  clpC Streptococcus pneumoniae D39

46.955

83.422

0.392
  clpC Streptococcus thermophilus LMD-9

46.429

82.353

0.382
  clpC Streptococcus mutans UA159

45.631

82.62

0.377
  clpC Streptococcus thermophilus LMG 18311

45.779

82.353

0.377

Multiple sequence alignment    



References

[1] Blandine David et al. (2017) Natural DNA Transformation Is Functional in Lactococcus lactis subsp. cremoris KW2. Applied And Environmental Microbiology 83(16):e01074-17. [PMID: 28625996]