Detailed information    

insolico Bioinformatically predicted

Overview


Name   clpC   Type   Regulator
Locus tag   LLHP_RS09555 Genome accession   NZ_CP120921
Coordinates   1874981..1877431 (-) Length   816 a.a.
NCBI ID   WP_011675609.1    Uniprot ID   -
Organism   Lactococcus cremoris subsp. cremoris HP     
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 1851326..1900756 1874981..1877431 within 0
IScluster/Tn 1878092..1879464 1874981..1877431 flank 661


Gene organization within MGE regions


Location: 1851326..1900756
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  LLHP_RS09430 (LLHP_09490) - 1851326..1852006 (+) 681 WP_021166361.1 ABC transporter ATP-binding protein -
  LLHP_RS09435 (LLHP_09495) - 1852048..1852152 (-) 105 Protein_1858 hypothetical protein -
  LLHP_RS09440 (LLHP_09500) - 1852663..1853433 (-) 771 WP_032951430.1 hypothetical protein -
  LLHP_RS09445 (LLHP_09505) - 1853973..1854152 (-) 180 WP_032951429.1 hypothetical protein -
  LLHP_RS09450 (LLHP_09510) - 1854152..1854496 (-) 345 WP_032951428.1 nucleotide pyrophosphohydrolase -
  LLHP_RS09455 (LLHP_09515) istB 1854680..1855438 (-) 759 WP_396424806.1 IS21-like element IS712 family helper ATPase IstB -
  LLHP_RS09460 (LLHP_09520) istA 1855450..1856673 (-) 1224 WP_003331415.1 IS21-like element IS712 family transposase -
  LLHP_RS09465 (LLHP_09525) - 1856749..1858341 (-) 1593 WP_081214368.1 DUF2075 domain-containing protein -
  LLHP_RS09470 (LLHP_09530) - 1858359..1859390 (-) 1032 Protein_1865 DNA/RNA helicase domain-containing protein -
  LLHP_RS09480 (LLHP_09540) - 1861085..1861471 (-) 387 WP_396424810.1 hypothetical protein -
  LLHP_RS09485 (LLHP_09545) - 1861901..1862837 (+) 937 Protein_1868 IS30 family transposase -
  LLHP_RS09490 (LLHP_09550) - 1862841..1863158 (-) 318 WP_063302276.1 hypothetical protein -
  LLHP_RS09495 (LLHP_09555) - 1863283..1863771 (-) 489 WP_235808532.1 transcriptional regulator -
  LLHP_RS09500 (LLHP_09560) - 1863835..1864950 (-) 1116 WP_063302275.1 UvrD-helicase domain-containing protein -
  LLHP_RS09505 (LLHP_09565) - 1864935..1866539 (-) 1605 WP_063302274.1 ATP-dependent endonuclease -
  LLHP_RS09510 (LLHP_09570) - 1866569..1866733 (-) 165 Protein_1873 restriction endonuclease subunit R -
  LLHP_RS09515 (LLHP_09575) - 1867627..1868913 (-) 1287 WP_063302290.1 hypothetical protein -
  LLHP_RS09520 (LLHP_09580) - 1868951..1869127 (-) 177 WP_011675617.1 hypothetical protein -
  LLHP_RS09525 (LLHP_09585) - 1869538..1869699 (-) 162 WP_169844095.1 hypothetical protein -
  LLHP_RS09530 (LLHP_09590) - 1870013..1870948 (+) 936 WP_031559015.1 IS30 family transposase -
  LLHP_RS09535 (LLHP_09595) - 1871175..1871742 (+) 568 Protein_1878 IS3 family transposase -
  LLHP_RS09540 (LLHP_09600) - 1871776..1872711 (-) 936 WP_032951316.1 tyrosine-type recombinase/integrase -
  LLHP_RS09545 (LLHP_09605) eno 1872800..1874101 (-) 1302 WP_010905473.1 surface-displayed alpha-enolase -
  LLHP_RS09550 (LLHP_09610) hpf 1874289..1874846 (-) 558 WP_011834629.1 ribosome hibernation-promoting factor, HPF/YfiA family -
  LLHP_RS09555 (LLHP_09615) clpC 1874981..1877431 (-) 2451 WP_011675609.1 ATP-dependent Clp protease ATP-binding subunit Regulator
  LLHP_RS09560 (LLHP_09620) - 1877421..1877876 (-) 456 WP_011834627.1 CtsR family transcriptional regulator -
  LLHP_RS09570 (LLHP_09630) greA 1879556..1880026 (-) 471 WP_014573028.1 transcription elongation factor GreA -
  LLHP_RS09575 (LLHP_09635) mltG 1880087..1881727 (-) 1641 WP_032951319.1 endolytic transglycosylase MltG -
  LLHP_RS09580 (LLHP_09640) rpoE 1881863..1882426 (-) 564 WP_021166354.1 DNA-directed RNA polymerase subunit delta -
  LLHP_RS09585 (LLHP_09645) - 1882642..1883154 (-) 513 WP_011834623.1 adenine phosphoribosyltransferase -
  LLHP_RS09590 (LLHP_09650) recJ 1883278..1885506 (-) 2229 WP_032951320.1 single-stranded-DNA-specific exonuclease RecJ -
  LLHP_RS09595 (LLHP_09655) - 1885679..1886380 (-) 702 WP_011675772.1 SDR family oxidoreductase -
  LLHP_RS09600 (LLHP_09660) rnz 1886373..1887296 (-) 924 WP_015082147.1 ribonuclease Z -
  LLHP_RS09610 (LLHP_09670) - 1888061..1888408 (+) 348 Protein_1892 XRE family transcriptional regulator -
  LLHP_RS09615 (LLHP_09675) - 1888835..1889533 (+) 699 WP_032951322.1 hypothetical protein -
  LLHP_RS09625 (LLHP_09685) - 1889782..1890684 (-) 903 WP_396424811.1 SPFH domain-containing protein -
  LLHP_RS09630 (LLHP_09690) - 1890849..1891517 (-) 669 WP_011675767.1 hypothetical protein -
  LLHP_RS09635 (LLHP_09695) miaA 1891663..1892547 (-) 885 WP_011675766.1 tRNA (adenosine(37)-N6)-dimethylallyltransferase MiaA -
  LLHP_RS09640 (LLHP_09700) - 1892679..1893344 (-) 666 WP_011675765.1 YitT family protein -
  LLHP_RS09645 (LLHP_09705) - 1893539..1893709 (+) 171 WP_080683462.1 DUF3042 family protein -
  LLHP_RS09650 (LLHP_09710) - 1893762..1895777 (-) 2016 WP_011675763.1 potassium transporter Kup -
  LLHP_RS09655 (LLHP_09715) - 1895992..1898013 (-) 2022 WP_063302303.1 potassium transporter Kup -
  LLHP_RS09660 (LLHP_09720) gndA 1898195..1899613 (-) 1419 WP_014573039.1 NADP-dependent phosphogluconate dehydrogenase -
  LLHP_RS09665 (LLHP_09725) - 1899747..1900307 (-) 561 WP_011675760.1 YtxH domain-containing protein -
  LLHP_RS09670 (LLHP_09730) - 1900337..1900756 (-) 420 WP_011675759.1 DUF948 domain-containing protein -

Sequence


Protein


Download         Length: 816 a.a.        Molecular weight: 90298.65 Da        Isoelectric Point: 6.5301

>NTDB_id=809342 LLHP_RS09555 WP_011675609.1 1874981..1877431(-) (clpC) [Lactococcus cremoris subsp. cremoris HP]
MKFENVKYTPTLDRIFEKAAEDAHQYQYGTIESAHLLAAMATTSGSIAYSILAGMNVDSSDLLIDLEDLSSHVKVKRSEL
RFSPRAEEVVTVASFLAVHNNAEAVGTEHLLYALLQVEDGFGIQLLKLQKINIVSLRKEIEKRTGLKVPENKKAVTPMSK
RKMAKGVAENSSTPTLDSVSSDLTEAARSGKLDPMIGREAEVDRLIHILSRRTKNNPVLVGEPGVGKSAIIEGLAQRIVN
GQVPIGLMNSRIMALNMATVVAGTKFRGEFEDRLTAIVEEVSADPDVIIFIDELHTIIGAGGGMDSVNDAANILKPALAR
GDFQMVGATTYHEYQKYIEKDEALERRLARINVDEPSPDEAIAILQGLREKFEDYHQVKFTDQAIKSAVTLSVRYMTSRK
LPDKAIDLLDEAAAAVKISVKNQETKRLELEKDLVKAQEELAEAVIKLDVKASRIKEKAVEKISDKIYKFSIKEEKRQEV
TDQAVIAVASTLTGVPITQMTKSESDRLINLEKELHKRVVGQEEAISAVSRAIRRARSGVADSRRPMGSFMFLGPTGVGK
TELAKALADSVFGSEDNMIRVDMSEFMEKHSTSRLIGAPPGYVGYDEGGQLTERVRNKPYSVVLLDEVEKAHPDVFNIML
QILDDGFVTDTKGRKVDFRNTIIIMTSNLGATALRDDKTVGFGAKNITADYSAMQSRILEELKRHYRPEFLNRIDENIVF
HSLESQEIEQIVKIMSKSLIKRLAEQDIHVKLTPSAIKLIAEVGFDPEYGARPLRKALQKEVEDLLSEQLLSGEIKAGNH
ISIGASNKKIKIAQIV

Nucleotide


Download         Length: 2451 bp        

>NTDB_id=809342 LLHP_RS09555 WP_011675609.1 1874981..1877431(-) (clpC) [Lactococcus cremoris subsp. cremoris HP]
ATGAAATTTGAAAATGTAAAATATACACCAACACTGGACCGAATTTTCGAGAAAGCAGCAGAAGATGCCCACCAATATCA
ATACGGTACGATTGAAAGTGCTCATTTATTGGCAGCAATGGCTACTACTTCAGGCTCAATTGCTTACAGTATTCTTGCTG
GAATGAATGTTGATTCTTCAGACTTACTGATTGATTTGGAAGATTTATCTAGCCATGTCAAAGTGAAACGTTCTGAATTA
CGTTTCTCTCCTCGCGCAGAAGAAGTGGTCACTGTAGCTAGCTTTTTAGCTGTTCATAATAATGCAGAAGCAGTAGGAAC
GGAGCATTTGCTTTATGCATTACTTCAAGTCGAAGATGGTTTTGGTATTCAACTTTTGAAGTTACAAAAAATCAATATTG
TTTCTTTGCGAAAAGAAATTGAAAAAAGAACAGGACTTAAAGTTCCAGAAAACAAAAAAGCTGTAACACCAATGTCCAAA
CGTAAGATGGCAAAAGGGGTAGCAGAGAATTCAAGTACACCAACTTTGGATTCAGTTTCTTCAGATTTAACTGAAGCTGC
TCGTTCAGGAAAGCTTGACCCAATGATTGGTCGGGAAGCAGAAGTTGACCGTTTGATTCATATTCTTAGTCGTAGAACAA
AAAATAACCCTGTTTTAGTTGGCGAACCTGGTGTTGGTAAATCAGCAATAATCGAGGGATTGGCTCAAAGAATTGTCAAC
GGCCAAGTACCTATCGGTTTGATGAATAGCCGGATTATGGCCCTAAATATGGCAACTGTTGTTGCTGGTACAAAATTTAG
AGGTGAATTTGAAGACCGCTTGACAGCAATTGTTGAAGAAGTAAGTGCTGACCCAGATGTCATCATTTTCATTGATGAAT
TGCATACAATTATTGGTGCTGGCGGGGGCATGGACTCGGTCAATGATGCAGCAAATATTTTAAAACCAGCCCTTGCACGT
GGTGATTTTCAAATGGTTGGGGCAACGACTTATCACGAATACCAAAAATACATTGAAAAAGATGAAGCATTAGAACGTCG
TTTGGCAAGAATCAATGTTGATGAGCCAAGTCCAGATGAAGCCATTGCTATCCTACAAGGGTTACGTGAGAAATTTGAAG
ATTATCATCAAGTAAAATTTACTGACCAAGCGATTAAAAGCGCTGTGACACTTAGTGTTCGGTACATGACCAGTCGCAAA
TTGCCTGATAAAGCCATCGACTTGCTTGATGAAGCAGCGGCAGCAGTTAAAATTTCTGTTAAAAACCAAGAAACAAAACG
TCTTGAATTAGAGAAAGACTTAGTTAAAGCTCAAGAAGAACTAGCGGAAGCTGTCATTAAACTTGATGTTAAAGCCTCTC
GCATCAAAGAAAAAGCTGTTGAAAAAATTTCTGACAAGATTTATAAATTCTCAATAAAAGAGGAAAAACGTCAAGAAGTT
ACTGACCAAGCTGTTATTGCTGTTGCCTCAACGCTGACAGGTGTTCCAATTACTCAAATGACTAAATCTGAAAGCGACCG
TTTGATTAATCTTGAAAAAGAATTGCACAAACGGGTCGTTGGTCAAGAAGAAGCAATTTCTGCGGTTTCAAGAGCCATTC
GTCGGGCACGTTCTGGTGTGGCTGATAGTCGCCGTCCAATGGGTTCATTTATGTTTCTTGGACCAACTGGTGTTGGGAAA
ACTGAGTTAGCTAAGGCCTTGGCCGATAGTGTTTTTGGTAGCGAAGACAACATGATTCGAGTGGATATGAGTGAATTTAT
GGAAAAACATTCAACTTCACGATTGATTGGAGCACCTCCAGGATATGTTGGTTATGATGAAGGTGGTCAATTGACTGAAC
GTGTTCGTAATAAACCCTATTCTGTGGTTCTTTTAGATGAAGTTGAGAAAGCTCATCCTGACGTTTTCAATATCATGTTG
CAAATTCTAGATGATGGATTTGTGACAGATACAAAGGGTCGCAAAGTTGATTTTAGAAACACAATTATTATCATGACTTC
AAACTTGGGTGCAACGGCTCTTCGTGATGATAAAACAGTTGGTTTTGGTGCAAAAAATATCACGGCTGACTACTCAGCTA
TGCAATCAAGAATTTTGGAAGAACTTAAACGTCATTATCGTCCAGAGTTTCTCAATCGTATTGATGAAAACATTGTTTTC
CATTCATTGGAAAGTCAAGAAATTGAACAAATTGTTAAGATTATGAGCAAATCTTTGATTAAACGTTTGGCGGAACAAGA
TATTCATGTGAAACTTACGCCATCAGCAATAAAACTAATCGCTGAAGTAGGATTTGACCCAGAATATGGGGCACGTCCAT
TGCGTAAAGCACTCCAAAAAGAAGTTGAAGATCTTTTAAGTGAGCAATTGCTCTCGGGTGAGATTAAAGCAGGAAATCAT
ATTTCCATTGGTGCTTCTAATAAAAAAATTAAAATCGCTCAAATTGTTTGA


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
  clpC Lactococcus lactis subsp. lactis strain DGCC12653

95.833

100

0.958

  clpC Streptococcus thermophilus LMD-9

51.023

100

0.52

  clpC Streptococcus thermophilus LMG 18311

50.903

100

0.518

  clpC Streptococcus pneumoniae Rx1

49.517

100

0.502

  clpC Streptococcus pneumoniae D39

49.517

100

0.502

  clpC Streptococcus pneumoniae TIGR4

49.396

100

0.501

  clpC Streptococcus mutans UA159

48.918

100

0.499

  clpC Bacillus subtilis subsp. subtilis str. 168

50.249

98.284

0.494

  clpE Streptococcus mutans UA159

46.923

79.657

0.374

  clpC Lactococcus lactis subsp. cremoris KW2

46.626

79.902

0.373

  clpE Streptococcus pneumoniae TIGR4

47.049

76.838

0.362

  clpE Streptococcus pneumoniae Rx1

47.049

76.838

0.362

  clpE Streptococcus pneumoniae D39

47.049

76.838

0.362

  clpE Streptococcus pneumoniae R6

47.049

76.838

0.362