Detailed information    

insolico Bioinformatically predicted

Overview

Name   clpC   Type   Regulator
Locus tag   LLJM1_RS02590 Genome accession   NZ_CP015899
Coordinates   457841..460087 (+) Length   748 a.a.
NCBI ID   WP_011675568.1    Uniprot ID   -
Organism   Lactococcus cremoris strain JM1     
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)
ICE 459850..484682 457841..460087 flank -237


Gene organization within MGE regions


Location: 457841..484682
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  LLJM1_RS02590 (LLJM1_0466) clpC 457841..460087 (+) 2247 WP_011675568.1 ATP-dependent Clp protease ATP-binding subunit Regulator
  LLJM1_RS02595 (LLJM1_0467) - 460213..460683 (-) 471 WP_032951355.1 Rrf2 family transcriptional regulator -
  LLJM1_RS02600 (LLJM1_0468) - 460852..461061 (+) 210 Protein_478 type I glyceraldehyde-3-phosphate dehydrogenase -
  LLJM1_RS02605 (LLJM1_0469) def 461285..461920 (-) 636 WP_021166306.1 peptide deformylase -
  LLJM1_RS02610 (LLJM1_0470) - 462075..462479 (+) 405 WP_011675572.1 RNA pyrophosphohydrolase -
  LLJM1_RS02615 (LLJM1_0471) uvrB 462541..464619 (+) 2079 WP_032951352.1 excinuclease ABC subunit UvrB -
  LLJM1_RS02620 (LLJM1_0472) - 464813..465622 (+) 810 WP_080513978.1 ABC transporter substrate-binding protein -
  LLJM1_RS02625 (LLJM1_0473) - 465637..466176 (+) 540 WP_014573071.1 M20 family metallopeptidase -
  LLJM1_RS02630 (LLJM1_03105) - 466173..466403 (+) 231 Protein_484 peptidase dimerization domain-containing protein -
  LLJM1_RS02635 (LLJM1_03110) - 466622..466756 (+) 135 WP_231097943.1 hypothetical protein -
  LLJM1_RS02640 (LLJM1_0475) fabZ 466808..467263 (-) 456 WP_011675575.1 3-hydroxyacyl-ACP dehydratase FabZ -
  LLJM1_RS02645 (LLJM1_0476) fabI 467539..468291 (+) 753 WP_011675576.1 enoyl-ACP reductase FabI -
  LLJM1_RS02650 (LLJM1_0477) yidC 468477..469439 (-) 963 WP_011675577.1 membrane protein insertase YidC -
  LLJM1_RS02655 (LLJM1_0478) - 469614..470372 (-) 759 WP_011675578.1 HAD-IIB family hydrolase -
  LLJM1_RS02660 (LLJM1_0479) - 470467..471057 (-) 591 WP_011675579.1 ECF transporter S component -
  LLJM1_RS02665 (LLJM1_0480) coaC 471074..471610 (-) 537 WP_014573068.1 phosphopantothenoylcysteine decarboxylase -
  LLJM1_RS02670 (LLJM1_0481) - 471603..472298 (-) 696 WP_011675580.1 phosphopantothenate--cysteine ligase -
  LLJM1_RS02675 (LLJM1_0482) - 472445..472630 (-) 186 WP_011675581.1 2-hydroxymuconate tautomerase -
  LLJM1_RS02680 (LLJM1_0483) - 472816..475143 (+) 2328 WP_032951347.1 cation-translocating P-type ATPase -
  LLJM1_RS02685 (LLJM1_0484) - 475176..475619 (+) 444 WP_011675583.1 GNAT family N-acetyltransferase -
  LLJM1_RS02690 (LLJM1_0485) - 475846..476442 (+) 597 WP_032951345.1 lipoprotein BA_5634 family protein -
  LLJM1_RS02700 (LLJM1_0488) - 477701..477928 (+) 228 WP_021166325.1 hypothetical protein -
  LLJM1_RS02705 (LLJM1_0489) - 477946..478989 (+) 1044 WP_011675590.1 hypothetical protein -
  LLJM1_RS02710 (LLJM1_0490) - 478995..479204 (+) 210 WP_014573057.1 hypothetical protein -
  LLJM1_RS02715 (LLJM1_0491) - 479264..479818 (+) 555 WP_231099848.1 hypothetical protein -
  LLJM1_RS02720 (LLJM1_0492) - 479794..480387 (+) 594 WP_231099849.1 site-specific integrase -
  LLJM1_RS02725 (LLJM1_0493) - 480827..481597 (+) 771 WP_063280755.1 hypothetical protein -
  LLJM1_RS02730 (LLJM1_0494) - 481863..482237 (-) 375 WP_063280754.1 hypothetical protein -
  LLJM1_RS02735 (LLJM1_0495) - 482474..483409 (+) 936 WP_031559015.1 IS30 family transposase -
  LLJM1_RS02740 (LLJM1_0496) - 483406..484491 (-) 1086 WP_063280704.1 AAA family ATPase -

Sequence

Protein


Download         Length: 748 a.a.        Molecular weight: 83194.00 Da        Isoelectric Point: 4.7590

>NTDB_id=182925 LLJM1_RS02590 WP_011675568.1 457841..460087(+) (clpC) [Lactococcus cremoris strain JM1]
MLCQNCNINEATIHLYTSVNGQKKQIDLCQNCYQIMKSGGQEALFGAGNASNGNSDEPFNPFNDIFSALQGQDFNGAASN
QTPPTQTGGRGPRGPQNPRAKQPKGMLEEFGINITESARRGEIDPVIGRDEEIKRVIEILNRRTKNNPVLIGEPGVGKTA
VVEGLAQKIVDGDVPQKLQNKEVIRLDVVSLVQGTGIRGQFEERMQKLMDEIRKRNDVIMFIDEIHEIVGAGSAGDGNMD
AGNILKPALARGELQLVGATTLNEYRIIEKDAALERRMQPVKVDEPSVDETITILRGIQARYEDYHHVKYTDEAIEAAAH
LSNRYIQDRFLPDKAIDLLDESGSKKNLTLKFVDPEDINRRIADAESKKNEATKAEDFEKAAHFRDQISKLRELQKQEVT
DEDMPVITEKDIEQIVEQKTQIPVGDLKEKEQTQLINLADDLKAHVIGQDEAVDKISKAIRRSRVGLGKPNRPIGSFLFV
GPTGVGKTELAKQLAKELFGSSESMIRFDMSEYMEKHSVAKLIGAPPGYVGYEEAGQLTERVRRNPYSLILLDEIEKAHP
DVMHMFLQILEDGRLTDAQGRTVSFKDSLIIMTSNAGTGKVEASVGFGAAREGRTKSVLGQLGDFFSPEFMNRFDGIIEF
SALSKENLLKIVDLMLDEVNEQIGRNDIHLSVTQAAKEKLVDLGYNPAMGARPLRRTIQENIEDSIADFYIEHPEYKQLV
ADLIDDKIVISNQTQETAETTDEEVPAE

Nucleotide


Download         Length: 2247 bp        

>NTDB_id=182925 LLJM1_RS02590 WP_011675568.1 457841..460087(+) (clpC) [Lactococcus cremoris strain JM1]
ATGCTTTGTCAAAATTGTAATATTAATGAAGCGACGATTCACCTTTACACAAGTGTAAATGGTCAGAAAAAACAAATTGA
TTTGTGCCAAAACTGTTATCAAATTATGAAATCTGGTGGTCAAGAAGCTTTATTTGGCGCAGGAAATGCCTCAAATGGAA
ATTCTGATGAACCCTTTAATCCGTTTAACGATATCTTCAGTGCTTTGCAAGGTCAAGATTTTAATGGGGCAGCAAGTAAT
CAAACTCCCCCAACACAAACGGGTGGGCGTGGTCCGCGTGGTCCACAAAATCCTCGGGCAAAACAACCTAAAGGGATGCT
AGAAGAATTCGGTATTAATATCACCGAATCAGCTCGTCGTGGCGAAATTGACCCAGTGATTGGGCGTGATGAAGAAATCA
AACGTGTTATTGAGATTTTAAATCGCAGAACTAAGAATAATCCAGTGCTAATTGGTGAACCTGGTGTTGGTAAAACAGCA
GTTGTTGAAGGTTTAGCACAAAAAATAGTCGATGGCGATGTGCCACAAAAACTGCAAAATAAAGAAGTTATTCGTCTTGA
CGTGGTTTCTCTTGTTCAAGGAACAGGAATTCGTGGACAATTTGAAGAACGGATGCAAAAATTAATGGATGAAATCAGAA
AACGTAATGATGTCATTATGTTTATTGATGAAATTCATGAAATTGTCGGTGCTGGTTCTGCTGGCGACGGCAATATGGAT
GCAGGTAATATCCTAAAACCGGCTCTTGCACGTGGTGAGCTTCAATTGGTTGGAGCAACAACACTCAACGAATATCGTAT
TATTGAAAAAGATGCGGCACTTGAACGTCGGATGCAACCGGTCAAAGTAGATGAACCATCAGTTGATGAAACAATTACGA
TTTTGCGAGGCATTCAAGCACGTTATGAAGATTATCATCATGTGAAATACACTGATGAGGCTATTGAAGCAGCTGCTCAT
TTGTCAAATCGTTACATTCAAGACCGATTCTTACCAGATAAAGCCATCGACCTTTTAGATGAATCTGGTTCTAAGAAAAA
TCTGACTTTGAAATTTGTTGACCCTGAGGATATCAATCGTCGAATTGCTGATGCGGAAAGTAAGAAAAATGAAGCAACTA
AGGCTGAAGATTTTGAAAAAGCCGCTCATTTCCGTGACCAAATCAGTAAACTTCGTGAATTGCAAAAACAAGAAGTTACT
GACGAAGATATGCCAGTCATCACTGAAAAAGATATTGAACAAATTGTTGAACAAAAAACACAAATTCCAGTTGGGGATTT
GAAAGAAAAAGAACAAACTCAGTTGATTAATTTGGCTGATGATTTGAAAGCACATGTGATTGGTCAAGATGAAGCAGTAG
ATAAAATATCAAAAGCAATTCGTCGCTCACGTGTAGGTCTTGGCAAACCTAACCGTCCAATTGGTTCTTTCCTTTTTGTT
GGTCCAACAGGTGTAGGTAAAACCGAACTTGCTAAACAATTGGCTAAAGAATTATTTGGCTCAAGTGAGAGCATGATTCG
TTTTGATATGTCGGAATACATGGAAAAACATTCGGTGGCCAAATTGATTGGTGCGCCTCCAGGATATGTAGGTTATGAAG
AAGCGGGTCAATTGACCGAACGTGTTCGTCGTAATCCATACAGTTTGATTTTGCTTGATGAAATTGAAAAAGCTCATCCT
GATGTCATGCACATGTTCTTACAAATTCTTGAAGATGGCCGTCTGACAGATGCACAAGGACGGACAGTATCCTTCAAAGA
TAGTTTGATTATCATGACTTCAAATGCCGGAACTGGTAAAGTTGAAGCTTCTGTTGGATTTGGTGCAGCCCGCGAAGGAC
GAACTAAATCAGTGCTTGGTCAACTTGGTGATTTCTTTAGCCCTGAATTCATGAACCGTTTTGACGGAATTATTGAATTC
TCTGCTTTAAGCAAAGAAAATCTCCTTAAAATTGTTGATTTAATGCTTGATGAAGTCAATGAACAAATTGGACGTAATGA
TATTCATCTTAGTGTCACTCAAGCCGCTAAAGAAAAATTAGTGGACTTAGGATATAACCCTGCAATGGGTGCAAGACCTC
TTCGTAGAACAATTCAAGAAAATATTGAAGATTCAATTGCTGATTTCTACATTGAACATCCTGAATATAAACAATTGGTA
GCTGATTTGATTGATGATAAAATTGTCATTTCTAATCAAACCCAAGAAACAGCAGAAACCACTGATGAAGAAGTTCCTGC
CGAATAA

Domains

Predicted by InterproScan.

AAA lid domain (AAA_lid_9)

(287-386)

AAA domain (Cdc48 subfamily) (AAA_2)

(472-635)

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

(149-268)

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
  clpC Lactococcus lactis subsp. cremoris KW2

99.866

100

0.999
  clpE Streptococcus mutans UA159

75.894

100

0.766
  clpE Streptococcus pneumoniae Rx1

75.815

98.396

0.746
  clpE Streptococcus pneumoniae D39

75.815

98.396

0.746
  clpE Streptococcus pneumoniae R6

75.815

98.396

0.746
  clpE Streptococcus pneumoniae TIGR4

75.815

98.396

0.746
  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 Rx1

46.955

83.422

0.392
  clpC Streptococcus pneumoniae D39

46.955

83.422

0.392
  clpC Streptococcus pneumoniae TIGR4

46.955

83.422

0.392
  clpC Streptococcus thermophilus LMD-9

46.429

82.353

0.382
  clpC Streptococcus thermophilus LMG 18311

46.266

82.353

0.381
  clpC Streptococcus mutans UA159

45.631

82.62

0.377

Multiple sequence alignment