Detailed information    

insolico Bioinformatically predicted

Overview

Name   clpC   Type   Regulator
Locus tag   LL229_RS03520 Genome accession   NZ_CP090823
Coordinates   614737..616983 (+) Length   748 a.a.
NCBI ID   WP_003130823.1    Uniprot ID   A0A269YWG7
Organism   Lactococcus lactis subsp. lactis strain 229     
Function   degradation of ComX (predicted from homology)   
Competence regulation

Related MGE

Note: This gene co-localizes with putative mobile genetic elements (MGEs) in the genome predicted by VRprofile2, as detailed below.

Gene-MGE association summary

MGE type MGE coordinates Gene coordinates Relative position Distance (bp)
Prophage 614763..630220 614737..616983 flank -2220
IScluster/Tn 614763..615874 614737..616983 within 0


Gene organization within MGE regions


Location: 614737..630220
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  LL229_RS03520 (LL229_0636) clpC 614737..616983 (+) 2247 WP_003130823.1 ATP-dependent Clp protease ATP-binding subunit Regulator
  LL229_RS03525 (LL229_0637) - 617405..617875 (-) 471 WP_010905440.1 Rrf2 family transcriptional regulator -
  LL229_RS03530 (LL229_0638) gap 618048..619061 (+) 1014 WP_003130818.1 type I glyceraldehyde-3-phosphate dehydrogenase -
  LL229_RS03535 (LL229_0639) def 619204..619839 (-) 636 WP_003130816.1 peptide deformylase -
  LL229_RS03540 (LL229_0640) - 619987..620448 (+) 462 WP_306171264.1 RNA pyrophosphohydrolase -
  LL229_RS03545 (LL229_0641) uvrB 620459..622537 (+) 2079 WP_003130812.1 excinuclease ABC subunit UvrB -
  LL229_RS03550 (LL229_0642) - 622733..623542 (+) 810 WP_010905441.1 ABC transporter substrate-binding protein -
  LL229_RS03555 (LL229_0643) - 623557..624675 (+) 1119 WP_021214900.1 M20 family metallopeptidase -
  LL229_RS03560 (LL229_0644) fabZ 624743..625198 (-) 456 WP_003130498.1 3-hydroxyacyl-ACP dehydratase FabZ -
  LL229_RS03565 (LL229_0645) fabI 625474..626226 (+) 753 WP_010905443.1 enoyl-ACP reductase FabI -
  LL229_RS03570 (LL229_0646) - 626488..626895 (+) 408 WP_003130500.1 hypothetical protein -
  LL229_RS03575 (LL229_0647) - 626964..627257 (+) 294 WP_021214901.1 ATP-binding cassette domain-containing protein -
  LL229_RS03580 (LL229_0648) - 627254..627604 (+) 351 WP_223203823.1 hypothetical protein -
  LL229_RS03585 (LL229_0649) - 627585..628505 (+) 921 WP_003130505.1 ABC transporter permease -
  LL229_RS03590 (LL229_0650) yidC 628630..629592 (-) 963 WP_003130506.1 membrane protein insertase YidC -

Sequence

Protein


Download         Length: 748 a.a.        Molecular weight: 83144.87 Da        Isoelectric Point: 4.7623

>NTDB_id=644950 LL229_RS03520 WP_003130823.1 614737..616983(+) (clpC) [Lactococcus lactis subsp. lactis strain 229]
MLCQNCNINEATIHLYTSVNGQKKQIDLCQNCYQIMKSGGQEALFGAGNASNGNSDEPFNPFNDIFSALHGQDFNGAAST
QTPPTQTGGRGPRGPQNPRAKQPKGMLEEFGINITESARRGEIDPVIGRDEEIKRVIEILNRRTKNNPVLIGEPGVGKTA
VVEGLAQKIVDGDVPQKLQNKEVIRLDVVSLVQGTGIRGQFEERMQKLMDEIRKRNDVIMFIDEIHEIVGAGSAGDGNMD
AGNILKPALARGELQLVGATTLNEYRIIEKDAALERRMQPVKVDEPSVDETITILRGIQARYEDYHHVKYTDEAIEAAAH
LSNRYIQDRFLPDKAIDLLDESGSKKNLTLKFVDPEDINRRIADAETKKNEATQAEDFEKAAHFRDQITKLRELQNHEVS
DDEIPVITEKDIEQIVEQKTHIPVGDLKEKEQTQLINLADDLKAHVIGQDEAVDKIAKAIRRSRVGLGKPNRPIGSFLFV
GPTGVGKTELAKQLAKELFGSSESMIRFDMSEYMEKHSVAKLIGAPPGYVGYEEAGQLTERVRRNPYSLILLDEIEKAHP
DVMHMFLQILEDGRLTDAQGRTVSFKDSLIIMTSNAGTGKVEASVGFGAAREGRTKSVLGQLGDFFSPEFMNRFDGIIEF
SALSKENLLKIVDLMLDEVNEQIGRNDIHLSVTQAAKEKLVDLGYNPAMGARPLRRTIQENIEDSIADFYIEHPEYKELV
ADLIDDKIVISNQAQETAETTDEEVPAE

Nucleotide


Download         Length: 2247 bp        

>NTDB_id=644950 LL229_RS03520 WP_003130823.1 614737..616983(+) (clpC) [Lactococcus lactis subsp. lactis strain 229]
ATGCTTTGTCAAAATTGTAATATTAATGAAGCGACGATTCACCTTTACACAAGTGTAAATGGTCAGAAAAAACAAATTGA
TTTGTGCCAAAACTGTTATCAAATTATGAAATCTGGCGGTCAAGAAGCTTTATTTGGCGCAGGAAATGCCTCAAATGGAA
ATTCTGATGAACCATTTAATCCATTTAATGATATCTTTAGTGCTTTGCACGGTCAAGATTTTAATGGAGCAGCAAGCACT
CAAACTCCACCAACACAAACAGGTGGACGTGGTCCGCGCGGTCCACAAAATCCTCGGGCAAAACAACCTAAAGGAATGTT
AGAAGAATTTGGAATTAACATCACAGAGTCAGCTCGTCGTGGCGAAATTGACCCAGTGATTGGGCGTGATGAAGAAATTA
AACGTGTCATTGAGATTTTAAATCGTAGGACTAAGAATAATCCTGTATTAATTGGTGAACCTGGTGTTGGTAAAACAGCA
GTTGTTGAAGGTTTAGCGCAAAAAATTGTGGACGGAGATGTGCCGCAAAAACTACAAAATAAAGAAGTGATTCGTCTTGA
TGTTGTTTCTCTTGTTCAAGGAACAGGAATTCGTGGACAATTTGAAGAACGGATGCAAAAATTAATGGATGAAATCAGAA
AACGTAATGATGTGATTATGTTTATTGATGAAATTCATGAAATTGTTGGTGCTGGTTCTGCCGGTGATGGCAATATGGAT
GCAGGAAATATCCTAAAACCTGCGCTTGCGCGTGGTGAGCTTCAATTGGTCGGAGCAACAACGCTCAATGAATATCGCAT
CATTGAAAAAGATGCTGCGCTTGAACGCCGGATGCAACCAGTTAAAGTCGATGAACCATCAGTTGATGAAACAATTACTA
TTTTGCGAGGCATTCAAGCACGTTATGAAGATTATCATCATGTGAAATACACTGATGAGGCTATTGAAGCAGCCGCTCAT
TTGTCAAATCGTTACATTCAAGACCGTTTCTTACCAGATAAAGCCATTGACCTTTTGGATGAGTCTGGTTCTAAGAAAAA
TCTAACCTTGAAATTTGTTGATCCTGAAGATATTAATCGTCGGATTGCGGATGCAGAAACGAAGAAAAATGAAGCAACAC
AGGCTGAAGATTTTGAAAAAGCCGCTCATTTCCGTGACCAAATCACTAAACTTCGTGAATTACAAAATCATGAAGTTTCA
GATGATGAAATTCCTGTCATCACTGAAAAAGATATTGAACAAATTGTTGAGCAAAAAACACATATTCCAGTTGGTGATTT
GAAAGAAAAAGAACAAACCCAATTGATTAATTTGGCTGATGATTTGAAAGCACATGTGATTGGTCAGGATGAAGCAGTGG
ATAAGATTGCTAAAGCTATCCGTCGTTCTCGTGTGGGACTTGGTAAACCTAATCGTCCAATTGGTTCTTTCCTTTTCGTT
GGTCCAACAGGTGTTGGTAAAACAGAACTTGCTAAACAATTGGCTAAAGAATTATTTGGCTCAAGTGAAAGTATGATTCG
TTTTGACATGTCGGAATACATGGAAAAACATTCGGTGGCCAAATTGATTGGAGCCCCTCCAGGATATGTGGGTTATGAAG
AAGCTGGTCAATTGACTGAACGTGTTCGTCGTAATCCCTACAGTTTGATTTTATTAGATGAAATCGAAAAAGCACATCCA
GATGTGATGCACATGTTCTTGCAAATTCTTGAAGATGGACGTCTGACAGACGCACAAGGACGGACAGTATCCTTTAAAGA
TAGTTTGATTATTATGACTTCTAATGCCGGAACTGGTAAAGTTGAAGCCTCTGTCGGATTTGGTGCTGCTCGTGAGGGAC
GAACTAAATCAGTGCTTGGTCAGCTTGGCGATTTCTTTAGCCCTGAATTCATGAACCGTTTTGACGGAATAATTGAATTC
TCTGCTTTGAGCAAAGAAAATCTCCTTAAAATTGTTGATTTGATGCTTGATGAAGTCAACGAACAAATTGGACGTAATGA
TATTCATCTTAGTGTCACTCAAGCAGCAAAAGAAAAATTAGTTGATTTAGGTTACAATCCAGCAATGGGTGCTAGACCAC
TTCGTAGAACAATTCAAGAAAATATCGAAGATTCAATTGCTGACTTCTATATTGAACACCCTGAATACAAAGAATTGGTT
GCTGATTTGATTGATGATAAAATTGTTATCTCTAATCAAGCTCAAGAAACAGCAGAAACGACTGATGAAGAAGTTCCTGC
TGAATAA

Domains

Predicted by InterproScan.

AAA lid domain (AAA_lid_9)

(287-386)

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

(149-268)

AAA domain (Cdc48 subfamily) (AAA_2)

(472-635)

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
  AlphaFold DB A0A269YWG7

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
  clpC Lactococcus lactis subsp. cremoris KW2

97.995

100

0.98
  clpE Streptococcus mutans UA159

76.026

100

0.767
  clpE Streptococcus pneumoniae Rx1

75.543

98.396

0.743
  clpE Streptococcus pneumoniae D39

75.543

98.396

0.743
  clpE Streptococcus pneumoniae R6

75.543

98.396

0.743
  clpE Streptococcus pneumoniae TIGR4

75.543

98.396

0.743
  clpC Bacillus subtilis subsp. subtilis str. 168

51.672

87.968

0.455
  clpC Lactococcus lactis subsp. lactis strain DGCC12653

47.635

81.952

0.39
  clpC Streptococcus pneumoniae Rx1

46.635

83.422

0.389
  clpC Streptococcus pneumoniae D39

46.635

83.422

0.389
  clpC Streptococcus pneumoniae TIGR4

46.635

83.422

0.389
  clpC Streptococcus thermophilus LMD-9

46.104

82.353

0.38
  clpC Streptococcus thermophilus LMG 18311

45.942

82.353

0.378
  clpC Streptococcus mutans UA159

45.631

82.62

0.377