Detailed information    

insolico Bioinformatically predicted

Overview

Name   clpC   Type   Regulator
Locus tag   LL1196_RS03315 Genome accession   NZ_CP032148
Coordinates   623036..625282 (+) Length   748 a.a.
NCBI ID   WP_205536473.1    Uniprot ID   A0A896T8C7
Organism   Lactococcus cremoris strain 1196     
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 617948..654086 623036..625282 within 0


Gene organization within MGE regions


Location: 617948..654086
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  LL1196_RS03285 (LL1196_02965) - 618118..618573 (+) 456 WP_021166300.1 SIS domain-containing protein -
  LL1196_RS03290 (LL1196_0609) - 618739..620118 (+) 1380 WP_205536472.1 MFS transporter -
  LL1196_RS03295 (LL1196_0610) - 620274..621143 (+) 870 WP_014573078.1 zinc ribbon domain-containing protein -
  LL1196_RS03300 (LL1196_02970) - 621150..621617 (+) 468 WP_242521106.1 zinc-ribbon domain-containing protein -
  LL1196_RS03305 (LL1196_0611) - 621578..622417 (+) 840 WP_228763839.1 hypothetical protein -
  LL1196_RS03310 (LL1196_0612) - 622646..622990 (+) 345 WP_011834562.1 hypothetical protein -
  LL1196_RS03315 (LL1196_0613) clpC 623036..625282 (+) 2247 WP_205536473.1 ATP-dependent Clp protease ATP-binding subunit Regulator
  LL1196_RS03320 (LL1196_0614) - 625408..625878 (-) 471 WP_011675569.1 Rrf2 family transcriptional regulator -
  LL1196_RS03325 (LL1196_0615) gap 626104..627117 (+) 1014 WP_021211644.1 type I glyceraldehyde-3-phosphate dehydrogenase -
  LL1196_RS03330 (LL1196_0616) def 627341..627976 (-) 636 WP_011675571.1 peptide deformylase -
  LL1196_RS03335 (LL1196_0617) - 628131..628535 (+) 405 WP_031289009.1 RNA pyrophosphohydrolase -
  LL1196_RS03340 (LL1196_0618) uvrB 628597..630675 (+) 2079 WP_011675573.1 excinuclease ABC subunit UvrB -
  LL1196_RS03345 (LL1196_0619) - 630857..631660 (+) 804 WP_021216124.1 ABC transporter substrate-binding protein -
  LL1196_RS03350 (LL1196_0621) - 631681..632792 (+) 1112 WP_205536325.1 IS3-like element IS981 family transposase -
  LL1196_RS03355 (LL1196_02975) - 632920..633459 (+) 540 WP_242521113.1 M20 family metallopeptidase -
  LL1196_RS03360 (LL1196_02980) - 633456..633686 (+) 231 Protein_633 peptidase dimerization domain-containing protein -
  LL1196_RS03365 (LL1196_02985) - 633905..634039 (+) 135 WP_231097943.1 hypothetical protein -
  LL1196_RS03370 (LL1196_0623) fabZ 634091..634546 (-) 456 WP_011675575.1 3-hydroxyacyl-ACP dehydratase FabZ -
  LL1196_RS03375 (LL1196_0624) fabI 634823..635575 (+) 753 WP_011675576.1 enoyl-ACP reductase FabI -
  LL1196_RS03380 (LL1196_0625) yidC 635761..636723 (-) 963 WP_021216120.1 membrane protein insertase YidC -
  LL1196_RS03385 (LL1196_0626) - 636898..637656 (-) 759 WP_011675578.1 HAD-IIB family hydrolase -
  LL1196_RS03390 (LL1196_0627) - 637751..638341 (-) 591 WP_011675579.1 ECF transporter S component -
  LL1196_RS03395 (LL1196_0628) coaC 638358..638894 (-) 537 WP_021216119.1 phosphopantothenoylcysteine decarboxylase -
  LL1196_RS03400 (LL1196_0629) - 638887..639582 (-) 696 WP_011675580.1 phosphopantothenate--cysteine ligase -
  LL1196_RS03405 (LL1196_0630) - 639729..639914 (-) 186 WP_011675581.1 2-hydroxymuconate tautomerase -
  LL1196_RS03410 (LL1196_0631) - 640100..641440 (+) 1341 WP_021216118.1 HAD-IC family P-type ATPase -
  LL1196_RS03415 (LL1196_0633) - 641461..642572 (+) 1112 WP_088792927.1 IS3-like element IS981 family transposase -
  LL1196_RS03420 (LL1196_0634) - 642629..643654 (+) 1026 Protein_645 HAD-IC family P-type ATPase -
  LL1196_RS03425 (LL1196_0635) - 643687..644130 (+) 444 WP_011675583.1 GNAT family N-acetyltransferase -
  LL1196_RS03430 (LL1196_0636) - 644358..644525 (+) 168 WP_021211697.1 hypothetical protein -
  LL1196_RS03440 (LL1196_0639) - 645891..646112 (+) 222 Protein_649 NUDIX hydrolase -
  LL1196_RS03445 (LL1196_0640) istB 646201..646959 (-) 759 WP_003331414.1 IS21-like element IS712 family helper ATPase IstB -
  LL1196_RS03450 (LL1196_0641) istA 646971..648194 (-) 1224 WP_003331415.1 IS21-like element IS712 family transposase -
  LL1196_RS03455 (LL1196_0642) - 648826..649170 (+) 345 WP_014573064.1 hypothetical protein -
  LL1196_RS03460 (LL1196_0643) - 649248..650030 (+) 783 WP_014573063.1 hypothetical protein -
  LL1196_RS03465 (LL1196_0644) - 650237..650554 (+) 318 WP_014573062.1 hypothetical protein -
  LL1196_RS03470 (LL1196_0645) - 650554..651630 (+) 1077 Protein_655 cell division protein FtsK -
  LL1196_RS03475 (LL1196_0647) - 651627..652241 (+) 615 WP_021216111.1 hypothetical protein -
  LL1196_RS03480 (LL1196_0648) - 652316..653302 (+) 987 WP_194942508.1 Replication initiation protein -
  LL1196_RS03485 (LL1196_0649) - 653308..653517 (+) 210 WP_014573057.1 hypothetical protein -

Sequence

Protein


Download         Length: 748 a.a.        Molecular weight: 83193.05 Da        Isoelectric Point: 4.8097

>NTDB_id=314075 LL1196_RS03315 WP_205536473.1 623036..625282(+) (clpC) [Lactococcus cremoris strain 1196]
MLCQNCNINEATIHLYTSVNGQKKQIDLCQNCYQIMKSGGQEALFGAGNASNGNSDEPFNPFNDIFSALQGQDFNGAASN
QTPPTQTGGRGPRGPQNPRAKQPKGMLEEFGINITESARRGEIDPVIGRDEEIKRVIEILNRRTKNNPVLIGEPGVGKTA
VVEGLAQKIVDGDVPQKLQNKEVIRLDVVSLVQGTGIRGQFEERMQKLMDEIRKRNDVIMFIDEIHEIVGAGSAGDGNMD
AGNILKPALARGELQLVGATTLNEYRIIEKDAALERRMQPVKVDEPSVDETITILRGIQARYEDYHHVKYTDEAIEAAAH
LSNRYIQDRFLPDKAIDLLDESGSKKNLTLKFVDPEDINRRIADAESKKNEATKAEDFEKAAHFRDQISKLRELQKQEVT
DEDMPVITEKDIEQIVEQKTQIPVGDLKEKEQTQLINLADDLKAHVIGQDEAVDKISKAIRRSRVGLGKPNRPIGSFLFV
GPTGVGKTELAKQLAKKLFGSSESMIRFDMSEYMEKHSVAKLIGAPPGYVGYEEAGQLTERVRRNPYSLILLDEIEKAHP
DVMHMFLQILEDGRLTDAQGRTVSFKDSLIIMTSNAGTGKVEASVGFGAAREGRTKSVLGQLGDFFSPEFMNRFDGIIEF
SALSKENLLKIVDLMLDEVNEQIGRNDIHLSVTQAAKEKLVDLGYNPAMGARPLRRTIQENIEDSIADFYIEHPEYKQLV
ADLIDDKIVISNQTQETAETTDEEVPAE

Nucleotide


Download         Length: 2247 bp        

>NTDB_id=314075 LL1196_RS03315 WP_205536473.1 623036..625282(+) (clpC) [Lactococcus cremoris strain 1196]
ATGCTTTGTCAAAATTGTAATATTAATGAAGCGACGATTCACCTTTACACAAGTGTAAATGGTCAGAAAAAACAAATTGA
TTTGTGCCAAAACTGTTATCAAATTATGAAATCTGGTGGTCAAGAAGCTTTATTTGGCGCAGGAAATGCCTCAAATGGAA
ATTCTGATGAACCCTTTAATCCGTTTAACGATATCTTCAGTGCTTTGCAAGGTCAAGATTTTAATGGGGCAGCAAGTAAT
CAAACTCCCCCAACACAAACGGGTGGGCGTGGTCCGCGTGGTCCACAAAATCCTCGGGCAAAACAACCTAAAGGGATGCT
AGAAGAATTCGGTATTAATATCACCGAATCAGCTCGTCGTGGCGAAATTGACCCAGTGATTGGGCGTGATGAAGAAATCA
AACGTGTTATTGAGATTTTAAATCGCAGAACTAAGAATAATCCAGTGCTAATTGGTGAACCTGGTGTTGGTAAAACAGCA
GTTGTTGAAGGTTTAGCACAAAAAATAGTCGATGGCGATGTGCCACAAAAACTGCAAAATAAAGAAGTTATTCGTCTTGA
CGTGGTTTCTCTTGTTCAAGGAACAGGAATTCGTGGACAATTTGAAGAACGGATGCAAAAATTAATGGATGAAATCAGAA
AACGTAATGATGTCATTATGTTTATTGATGAAATTCATGAAATTGTCGGTGCTGGTTCTGCTGGCGACGGCAATATGGAT
GCAGGTAATATCCTAAAACCGGCTCTTGCACGTGGTGAGCTTCAATTGGTTGGAGCAACAACACTCAACGAATATCGTAT
TATTGAAAAAGATGCGGCACTTGAACGTCGGATGCAACCGGTCAAAGTAGATGAACCATCAGTTGATGAAACAATTACGA
TTTTGCGAGGCATTCAAGCACGTTATGAAGATTATCATCATGTGAAATACACTGATGAGGCTATTGAAGCAGCTGCTCAT
TTGTCAAATCGTTACATTCAAGACCGATTCTTACCAGATAAAGCCATCGACCTTTTAGATGAATCTGGTTCTAAGAAAAA
TCTGACTTTGAAATTTGTTGACCCTGAGGATATCAATCGTCGAATTGCTGATGCGGAAAGTAAGAAAAATGAAGCAACTA
AGGCTGAAGATTTTGAAAAAGCCGCTCATTTCCGTGACCAAATCAGTAAACTTCGTGAATTGCAAAAACAAGAAGTTACT
GACGAAGATATGCCAGTCATAACTGAAAAAGATATTGAACAAATTGTTGAACAAAAAACACAAATTCCAGTTGGGGATTT
GAAAGAAAAAGAACAAACTCAGTTGATTAATTTGGCTGATGATTTGAAAGCACATGTGATTGGTCAAGATGAAGCAGTAG
ATAAAATATCAAAAGCAATTCGTCGCTCACGTGTAGGTCTTGGCAAACCTAACCGTCCAATTGGTTCTTTCCTTTTTGTT
GGTCCAACAGGTGTAGGTAAAACCGAACTTGCTAAACAATTGGCTAAAAAATTATTTGGCTCAAGTGAGAGCATGATTCG
TTTTGATATGTCGGAATACATGGAAAAACATTCGGTGGCCAAATTGATTGGTGCGCCTCCAGGATATGTAGGTTATGAAG
AAGCGGGTCAATTGACCGAACGTGTTCGTCGTAATCCATACAGTTTGATTTTGCTTGATGAAATTGAAAAAGCTCATCCT
GATGTCATGCACATGTTCTTACAAATTCTTGAAGATGGCCGTCTGACAGATGCACAAGGACGGACAGTATCCTTCAAAGA
TAGTTTGATTATCATGACTTCAAATGCCGGAACTGGTAAAGTTGAAGCTTCTGTTGGATTTGGTGCAGCCCGCGAAGGAC
GAACTAAATCAGTGCTTGGTCAACTTGGTGATTTCTTTAGCCCTGAATTCATGAACCGTTTTGACGGAATTATTGAATTC
TCTGCTTTAAGCAAAGAAAATCTCCTTAAAATTGTTGATTTAATGCTTGATGAAGTCAATGAACAAATTGGACGTAATGA
TATTCATCTTAGTGTCACTCAAGCCGCTAAAGAAAAATTAGTGGACTTAGGATATAACCCTGCAATGGGTGCAAGACCTC
TTCGTAGAACAATTCAAGAAAATATTGAAGATTCAATTGCTGATTTCTACATTGAACATCCTGAATATAAACAATTGGTA
GCTGATTTGATTGATGATAAAATTGTCATTTCTAATCAAACCCAAGAAACAGCAGAAACCACTGATGAAGAAGTTCCTGC
CGAATAA

Domains

Predicted by InterproScan.

AAA lid domain (AAA_lid_9)

(287-386)

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

(643-713)

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

(149-268)

AAA domain (Cdc48 subfamily) (AAA_2)

(472-635)


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

99.733

100

0.997
  clpE Streptococcus mutans UA159

75.762

100

0.765
  clpE Streptococcus pneumoniae Rx1

75.679

98.396

0.745
  clpE Streptococcus pneumoniae D39

75.679

98.396

0.745
  clpE Streptococcus pneumoniae R6

75.679

98.396

0.745
  clpE Streptococcus pneumoniae TIGR4

75.679

98.396

0.745
  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