Detailed information    

insolico Bioinformatically predicted

Overview

Name   clpC   Type   Regulator
Locus tag   LLUC109_RS02835 Genome accession   NZ_CP015907
Coordinates   539700..541946 (+) Length   748 a.a.
NCBI ID   WP_015082116.1    Uniprot ID   -
Organism   Lactococcus cremoris strain UC109     
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 541685..578445 539700..541946 flank -261


Gene organization within MGE regions


Location: 539700..578445
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  LLUC109_RS02835 (LLUC109_0520) clpC 539700..541946 (+) 2247 WP_015082116.1 ATP-dependent Clp protease ATP-binding subunit Regulator
  LLUC109_RS02840 (LLUC109_0521) - 542072..542542 (-) 471 WP_015082117.1 Rrf2 family transcriptional regulator -
  LLUC109_RS02845 (LLUC109_0522) gap 542768..543781 (+) 1014 Protein_533 type I glyceraldehyde-3-phosphate dehydrogenase -
  LLUC109_RS02850 (LLUC109_0523) def 544005..544640 (-) 636 WP_011675571.1 peptide deformylase -
  LLUC109_RS02855 (LLUC109_0524) - 544795..545199 (+) 405 WP_015082118.1 RNA pyrophosphohydrolase -
  LLUC109_RS02860 (LLUC109_0525) uvrB 545261..547339 (+) 2079 WP_011675573.1 excinuclease ABC subunit UvrB -
  LLUC109_RS02865 (LLUC109_0526) - 547533..548342 (+) 810 WP_081172523.1 ABC transporter substrate-binding protein -
  LLUC109_RS02870 (LLUC109_0527) - 548357..548896 (+) 540 WP_228763946.1 M20 family metallopeptidase -
  LLUC109_RS02875 (LLUC109_02535) - 548893..549123 (+) 231 Protein_539 peptidase dimerization domain-containing protein -
  LLUC109_RS02880 (LLUC109_02540) - 549342..549476 (+) 135 WP_231097943.1 hypothetical protein -
  LLUC109_RS02885 (LLUC109_0529) fabZ 549528..549983 (-) 456 WP_011675575.1 3-hydroxyacyl-ACP dehydratase FabZ -
  LLUC109_RS02890 (LLUC109_0530) fabI 550260..551012 (+) 753 WP_015082121.1 enoyl-ACP reductase FabI -
  LLUC109_RS02895 (LLUC109_0531) yidC 551198..552160 (-) 963 WP_015082122.1 membrane protein insertase YidC -
  LLUC109_RS02900 (LLUC109_0532) - 552335..553093 (-) 759 WP_011675578.1 HAD-IIB family hydrolase -
  LLUC109_RS02905 (LLUC109_0533) - 553188..553778 (-) 591 WP_011675579.1 ECF transporter S component -
  LLUC109_RS02910 (LLUC109_0534) coaC 553795..554331 (-) 537 WP_014573068.1 phosphopantothenoylcysteine decarboxylase -
  LLUC109_RS02915 (LLUC109_0535) - 554324..555019 (-) 696 WP_011675580.1 phosphopantothenate--cysteine ligase -
  LLUC109_RS02920 (LLUC109_0536) - 555129..555350 (-) 222 WP_015082124.1 2-hydroxymuconate tautomerase -
  LLUC109_RS02925 (LLUC109_0537) - 555536..557863 (+) 2328 Protein_549 cation-translocating P-type ATPase -
  LLUC109_RS02930 (LLUC109_0539) - 557896..558090 (+) 195 WP_051013160.1 hypothetical protein -
  LLUC109_RS02935 (LLUC109_0541) - 558111..559222 (+) 1112 WP_127005270.1 IS3-like element IS981 family transposase -
  LLUC109_RS02940 (LLUC109_0542) - 559537..559881 (+) 345 WP_014573064.1 hypothetical protein -
  LLUC109_RS02945 (LLUC109_0543) - 559959..560741 (+) 783 WP_014573063.1 hypothetical protein -
  LLUC109_RS02950 (LLUC109_0544) - 560948..561265 (+) 318 WP_014573062.1 hypothetical protein -
  LLUC109_RS02955 (LLUC109_0545) - 561265..562299 (+) 1035 Protein_555 cell division protein FtsK -
  LLUC109_RS02960 (LLUC109_0546) - 562458..563501 (+) 1044 WP_011675590.1 hypothetical protein -
  LLUC109_RS02965 (LLUC109_0547) - 563507..563716 (+) 210 WP_014573057.1 hypothetical protein -
  LLUC109_RS02970 (LLUC109_0548) - 563776..564900 (+) 1125 WP_081172391.1 site-specific integrase -
  LLUC109_RS02975 (LLUC109_0549) - 565070..565639 (+) 570 WP_011675593.1 thymidine kinase -
  LLUC109_RS02980 (LLUC109_0550) - 565650..566093 (+) 444 WP_011675594.1 hypothetical protein -
  LLUC109_RS02985 (LLUC109_0551) prfA 566111..567184 (+) 1074 WP_011675595.1 peptide chain release factor 1 -
  LLUC109_RS02990 (LLUC109_0552) - 567184..567711 (+) 528 WP_015082127.1 hypothetical protein -
  LLUC109_RS02995 (LLUC109_0553) nfsA 567781..568536 (+) 756 WP_011675598.1 oxygen-insensitive NADPH nitroreductase -
  LLUC109_RS03000 (LLUC109_0554) prmC 568641..569456 (+) 816 WP_015082128.1 peptide chain release factor N(5)-glutamine methyltransferase -
  LLUC109_RS03005 (LLUC109_0555) - 569487..569951 (+) 465 WP_011675600.1 GNAT family N-acetyltransferase -
  LLUC109_RS03010 (LLUC109_0556) - 569975..570868 (+) 894 WP_257590455.1 L-threonylcarbamoyladenylate synthase -
  LLUC109_RS03015 (LLUC109_0557) glyA 571101..572348 (+) 1248 WP_015082129.1 serine hydroxymethyltransferase -
  LLUC109_RS03020 (LLUC109_0558) - 572529..573131 (+) 603 WP_015082130.1 lysozyme family protein -
  LLUC109_RS03025 (LLUC109_0559) serC 573258..574355 (+) 1098 WP_081172392.1 3-phosphoserine/phosphohydroxythreonine transaminase -
  LLUC109_RS03030 (LLUC109_0560) - 574352..575548 (+) 1197 WP_015082132.1 3-phosphoglycerate dehydrogenase family protein -
  LLUC109_RS03035 (LLUC109_0561) serB 575594..576256 (+) 663 WP_011675606.1 phosphoserine phosphatase SerB -
  LLUC109_RS03040 (LLUC109_02545) - 576299..576586 (-) 288 Protein_572 acylphosphatase -
  LLUC109_RS03045 (LLUC109_0563) - 576698..577456 (+) 759 WP_015082133.1 RNA methyltransferase -
  LLUC109_RS03050 (LLUC109_0564) - 577668..578057 (-) 390 WP_015082134.1 cupin domain-containing protein -
  LLUC109_RS03055 (LLUC109_0565) - 578057..578284 (-) 228 WP_011675745.1 hypothetical protein -

Sequence

Protein


Download         Length: 748 a.a.        Molecular weight: 83252.03 Da        Isoelectric Point: 4.7362

>NTDB_id=183310 LLUC109_RS02835 WP_015082116.1 539700..541946(+) (clpC) [Lactococcus cremoris strain UC109]
MLCQNCNINEATIHLYTSVNGQKKQIDLCQNCYQIMKSGGQEALFGAGNASNGNSDEPFNPFNDIFSALQGQDFNGAASN
QTPPTQTGGRGPRGPQNPRAKQPKGMLEEFGINITESARRGEIDPVIGRDEEIKRVIEILNRRTKNNPVLIGEPGVGKTA
VVEGLAQKIVDDDVPQKLQNKEVIRLDVVSLVQGTGIRGQFEERMQKLMDEIRKRNDVIMFIDEIHEIVGAGSAGDGNMD
AGNILKPALARGELQLVGATTLNEYRIIEKDAALERRMQPVKVDEPSVDETITILRGIQARYEDYHHVKYTDEAIEAAAH
LSNRYIQDRFLPDKAIDLLDESGSKKNLTLKFVDPEDINRRIADAESKKNEATKAEDFEKAAHFRDQISKLRELQKQEVT
DEDMPVITEKDIEQIVEQKTQIPVGDLKEKEQTQLINLADDLKAHVIGQDEAVDKISKAIRRSRVGLGKPNRPIGSFLFV
GPTGVGKTELAKQLAKELFGSSESMIRFDMSEYMEKHSVAKLIGAPPGYVGYEEAGQLTERVRRNPYSLILLDEIEKAHP
DVMHMFLQILEDGRLTDAQGRTVSFKDSLIIMTSNAGTGKVEASVGFGAAREGRTKSVLGQLGDFFSPEFMNRFDGIIEF
SALSKENLLKIVDLMLDEVNEQIGRNDIHLSVTQAAKEKLVDLGYNPAMGARPLRRTIQENIEDSIADFYIEHPEYKQLV
ADLIDDKIVISNQTQETAETTDEEVPAE

Nucleotide


Download         Length: 2247 bp        

>NTDB_id=183310 LLUC109_RS02835 WP_015082116.1 539700..541946(+) (clpC) [Lactococcus cremoris strain UC109]
ATGCTTTGTCAAAATTGTAATATTAATGAAGCGACGATTCACCTTTACACAAGTGTAAATGGTCAGAAAAAACAAATTGA
TTTGTGCCAAAACTGTTATCAAATTATGAAATCTGGTGGTCAAGAAGCTTTATTTGGCGCAGGAAATGCCTCAAATGGAA
ATTCTGATGAACCCTTTAATCCGTTTAACGATATCTTCAGTGCTTTGCAAGGTCAAGATTTTAATGGGGCAGCAAGTAAT
CAAACTCCCCCAACACAAACGGGTGGGCGTGGTCCGCGTGGTCCACAAAATCCTCGGGCAAAACAACCTAAAGGGATGCT
AGAAGAATTCGGTATTAATATCACCGAATCAGCTCGTCGTGGCGAAATTGACCCAGTGATTGGGCGTGATGAAGAAATCA
AACGTGTTATTGAGATTTTAAATCGCAGAACTAAGAATAATCCAGTGCTAATTGGTGAACCTGGTGTTGGTAAAACAGCA
GTTGTTGAAGGTTTAGCACAAAAAATAGTCGATGACGATGTGCCACAAAAACTGCAAAATAAAGAAGTTATTCGTCTTGA
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)

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

(643-713)

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

(149-268)


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

46.87

87.567

0.41
  clpC Streptococcus pneumoniae Rx1

46.795

83.422

0.39
  clpC Streptococcus pneumoniae D39

46.795

83.422

0.39
  clpC Streptococcus pneumoniae TIGR4

46.795

83.422

0.39
  clpC Streptococcus thermophilus LMD-9

46.266

82.353

0.381
  clpC Streptococcus thermophilus LMG 18311

46.104

82.353

0.38
  clpC Streptococcus mutans UA159

45.631

82.62

0.377

Multiple sequence alignment