Detailed information    

insolico Bioinformatically predicted

Overview

Name   clpC   Type   Regulator
Locus tag   GU336_RS10345 Genome accession   NZ_CP047616
Coordinates   2111972..2114416 (-) Length   814 a.a.
NCBI ID   WP_096039507.1    Uniprot ID   A0A290PWR0
Organism   Lactococcus raffinolactis strain Lr_19_5     
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 2114445..2156769 2111972..2114416 flank 29


Gene organization within MGE regions


Location: 2111972..2156769
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  GU336_RS10345 (GU336_10340) clpC 2111972..2114416 (-) 2445 WP_096039507.1 ATP-dependent Clp protease ATP-binding subunit Regulator
  GU336_RS10350 (GU336_10345) - 2114445..2114909 (-) 465 WP_167372298.1 CtsR family transcriptional regulator -
  GU336_RS10355 (GU336_10350) - 2115275..2115976 (+) 702 WP_061774866.1 XRE family transcriptional regulator -
  GU336_RS10360 (GU336_10355) - 2116023..2117468 (+) 1446 WP_167839015.1 Y-family DNA polymerase -
  GU336_RS10365 - 2117465..2117635 (+) 171 WP_167839016.1 hypothetical protein -
  GU336_RS10370 (GU336_10360) - 2117671..2118072 (+) 402 WP_096039509.1 YbgA family protein -
  GU336_RS10375 (GU336_10365) - 2118056..2118418 (+) 363 WP_061774863.1 TIGR02328 family protein -
  GU336_RS10380 (GU336_10370) greA 2118507..2118989 (-) 483 WP_003140218.1 transcription elongation factor GreA -
  GU336_RS10385 (GU336_10375) mltG 2119081..2120724 (-) 1644 WP_167839017.1 endolytic transglycosylase MltG -
  GU336_RS10390 (GU336_10380) rpoE 2120858..2121442 (-) 585 WP_061774878.1 DNA-directed RNA polymerase subunit delta -
  GU336_RS10395 (GU336_10385) - 2121786..2122298 (-) 513 WP_061774860.1 adenine phosphoribosyltransferase -
  GU336_RS10400 (GU336_10390) recJ 2122300..2124525 (-) 2226 WP_061774859.1 single-stranded-DNA-specific exonuclease RecJ -
  GU336_RS10405 (GU336_10395) - 2124522..2125253 (-) 732 WP_061774858.1 SDR family NAD(P)-dependent oxidoreductase -
  GU336_RS10410 (GU336_10400) rnz 2125250..2126191 (-) 942 WP_096039512.1 ribonuclease Z -
  GU336_RS10420 (GU336_10410) - 2126490..2127386 (-) 897 WP_167839018.1 SPFH domain-containing protein -
  GU336_RS10425 (GU336_10415) - 2127383..2128057 (-) 675 WP_061774855.1 hypothetical protein -
  GU336_RS10430 (GU336_10420) hflX 2128032..2129297 (-) 1266 WP_061774854.1 GTPase HflX -
  GU336_RS10435 (GU336_10425) miaA 2129284..2130195 (-) 912 WP_061774853.1 tRNA (adenosine(37)-N6)-dimethylallyltransferase MiaA -
  GU336_RS10440 (GU336_10430) - 2130342..2131292 (+) 951 WP_068164079.1 IS30 family transposase -
  GU336_RS10445 (GU336_10435) - 2131461..2132624 (-) 1164 WP_061774852.1 site-specific integrase -
  GU336_RS10450 (GU336_10440) - 2132678..2132902 (-) 225 WP_061774851.1 hypothetical protein -
  GU336_RS10455 (GU336_10445) - 2133008..2133523 (-) 516 WP_167839019.1 hypothetical protein -
  GU336_RS10460 (GU336_10450) - 2133527..2134588 (-) 1062 WP_167839020.1 phage tail tip lysozyme -
  GU336_RS10465 (GU336_10455) - 2134701..2137118 (-) 2418 WP_167839021.1 hypothetical protein -
  GU336_RS10470 (GU336_10460) - 2137115..2137288 (-) 174 WP_156470241.1 hypothetical protein -
  GU336_RS10475 (GU336_10465) - 2137310..2139793 (-) 2484 WP_167838204.1 ATP-binding protein -
  GU336_RS10480 (GU336_10470) - 2139798..2140172 (-) 375 WP_031367045.1 hypothetical protein -
  GU336_RS10485 (GU336_10475) - 2140174..2140404 (-) 231 WP_003137046.1 hypothetical protein -
  GU336_RS10490 (GU336_10480) - 2140406..2141623 (-) 1218 WP_167838205.1 conjugal transfer protein -
  GU336_RS10495 (GU336_10485) - 2141705..2142202 (-) 498 WP_167839022.1 hypothetical protein -
  GU336_RS10500 (GU336_10490) - 2142248..2142532 (-) 285 WP_003139569.1 hypothetical protein -
  GU336_RS10505 (GU336_10495) - 2142611..2142934 (-) 324 WP_245334346.1 hypothetical protein -
  GU336_RS10510 (GU336_10500) - 2142927..2144189 (-) 1263 WP_167839024.1 replication initiation factor domain-containing protein -
  GU336_RS10515 (GU336_10505) - 2144167..2144367 (-) 201 WP_061775298.1 hypothetical protein -
  GU336_RS13040 (GU336_10510) - 2144672..2146261 (-) 1590 WP_157738481.1 FtsK/SpoIIIE domain-containing protein -
  GU336_RS10525 (GU336_10515) - 2146289..2146819 (-) 531 WP_167839025.1 DUF961 family protein -
  GU336_RS10530 (GU336_10520) - 2146819..2147130 (-) 312 WP_031367055.1 hypothetical protein -
  GU336_RS10535 (GU336_10525) - 2147254..2147502 (-) 249 WP_167839026.1 hypothetical protein -
  GU336_RS10540 (GU336_10530) - 2147923..2148261 (-) 339 WP_003137705.1 hypothetical protein -
  GU336_RS10545 (GU336_10535) - 2148262..2148552 (-) 291 WP_167839027.1 type II toxin-antitoxin system RelB/DinJ family antitoxin -
  GU336_RS10550 (GU336_10540) - 2149596..2149931 (+) 336 WP_003137701.1 helix-turn-helix transcriptional regulator -
  GU336_RS10555 (GU336_10545) - 2149935..2150375 (+) 441 WP_167839028.1 ImmA/IrrE family metallo-endopeptidase -
  GU336_RS10560 (GU336_10550) - 2150683..2151270 (-) 588 WP_167839029.1 recombinase family protein -
  GU336_RS10565 (GU336_10555) - 2151273..2151578 (-) 306 WP_031367166.1 bacteriocin immunity protein -
  GU336_RS10570 (GU336_10560) - 2151755..2152633 (-) 879 WP_167839190.1 IS3 family transposase -
  GU336_RS10575 (GU336_10565) - 2152636..2152923 (-) 288 WP_014571824.1 helix-turn-helix domain-containing protein -
  GU336_RS10580 (GU336_10570) - 2154729..2154932 (-) 204 WP_167839030.1 hypothetical protein -
  GU336_RS10585 (GU336_10575) - 2156163..2156495 (-) 333 WP_167839031.1 type II toxin-antitoxin system RelE/ParE family toxin -
  GU336_RS10590 (GU336_10580) - 2156485..2156769 (-) 285 WP_167839032.1 addiction module antitoxin RelB -

Sequence

Protein


Download         Length: 814 a.a.        Molecular weight: 89669.50 Da        Isoelectric Point: 5.6559

>NTDB_id=414662 GU336_RS10345 WP_096039507.1 2111972..2114416(-) (clpC) [Lactococcus raffinolactis strain Lr_19_5]
MTQNYTHILEDILKTARVFAAGNGYDYAETSHVLAGMLSSNDSFGQNILTDHDVTIEMALDEIEQHQLPEKMQTVQNIQF
SPKVEQLLLEADALAAQNHLAETGSEHLLYVILTDDDNVAKKLLELNKIKITEIVKDLIELGNMNVKKIAKKAVTPMGKR
DIASGVAATSITPTLDSVARDVTEDARQGRIDPMIGRDKEIERVIHILSRRTKNNPVLVGEPGVGKSAIIEGLAQRMIDG
NIPANMQGVRLMSLNIANVVAGTKFRGEFEDRMTAIVDEVSQDANTIVFVDELHTIVGAGGGTDSVTDASNIMKPALARG
EFQLIGATTFNEYQKYIEKDAALERRFAKVTVEEPSSDESIVILQGLQSKFEAFHQVNFDADAVKAAVQLSVRYMPSRRL
PDKAIDLLDEAAAAVKISAKNNLSEQSKLDKKASQLDEQLQEAIINQDFVLAKSLNKDLQKLEAKREKLTVKTKSSRVSE
GDVFAVVSNLTGVPVTQMSQSEMTRLINLEKELHKRVIGQSEAVTAVASAIRRSRSGISDDRRPMGSFMFLGPTGVGKTE
LAKALAETVFGDENSMIRIDMSEYMEKFNTSRLVGAPPGYVGYDEGGQLTEQVRNKPYAVVLFDEAEKAHPDVFNLLLQI
LDDGFITDGKGRKVDFRNTIIIMTSNLGATSLRDDKTVGFGAANASTDYVAMKSRILEELKKRYRPEFLNRIDESIVFHP
LSEQELSDIVKIMAKPLIKRLAERHITLKLSATAYQLIAKNGFEPEYGARPIRKALEKKLENPLSDKILSGEIKAGNSVT
VGVSKGELTIKVID

Nucleotide


Download         Length: 2445 bp        

>NTDB_id=414662 GU336_RS10345 WP_096039507.1 2111972..2114416(-) (clpC) [Lactococcus raffinolactis strain Lr_19_5]
ATGACACAAAATTATACGCACATACTTGAAGATATTCTCAAAACAGCTCGCGTTTTTGCGGCGGGCAATGGTTATGATTA
TGCAGAAACATCACACGTCTTGGCGGGGATGTTATCGAGTAACGATAGCTTTGGACAAAACATTCTAACGGATCACGATG
TGACGATTGAAATGGCGCTAGATGAAATCGAACAACACCAGTTACCCGAAAAAATGCAAACGGTTCAAAATATCCAATTT
TCACCTAAGGTCGAACAGCTCTTGCTTGAAGCAGATGCACTTGCAGCTCAAAATCATTTGGCAGAAACAGGGTCTGAACA
CTTGCTCTATGTCATCTTGACTGATGATGACAATGTTGCCAAGAAACTTTTGGAACTAAACAAAATCAAAATTACTGAAA
TCGTTAAAGACTTAATTGAGCTCGGTAATATGAATGTGAAAAAAATAGCTAAAAAAGCGGTCACACCGATGGGAAAACGA
GATATCGCATCGGGTGTTGCGGCGACAAGTATTACGCCAACGCTAGATTCAGTGGCGCGTGATGTGACAGAAGATGCCAG
ACAAGGGCGCATTGACCCGATGATTGGGCGTGATAAGGAAATTGAGCGCGTGATTCACATTTTGAGTCGTCGCACGAAAA
ATAATCCTGTCCTCGTTGGCGAACCAGGTGTTGGTAAATCTGCCATTATCGAAGGCTTGGCACAACGCATGATTGATGGT
AACATCCCTGCCAATATGCAAGGTGTGCGTCTTATGTCACTTAATATCGCTAATGTCGTTGCCGGTACTAAATTCCGCGG
AGAATTTGAAGACCGGATGACTGCGATTGTTGATGAAGTCAGCCAAGATGCTAACACTATCGTGTTTGTTGATGAGCTCC
ATACTATCGTCGGTGCTGGTGGCGGAACGGATTCTGTTACCGATGCCTCAAACATTATGAAACCTGCACTAGCTCGTGGT
GAGTTTCAGCTGATTGGCGCAACGACCTTTAACGAATACCAAAAATACATCGAAAAAGATGCTGCTCTGGAACGTCGCTT
TGCAAAAGTTACTGTTGAAGAGCCATCTTCAGACGAATCGATTGTAATTCTACAAGGTCTTCAAAGCAAATTTGAAGCCT
TTCATCAGGTAAATTTTGACGCTGATGCAGTCAAGGCAGCGGTTCAGCTCAGTGTTCGCTATATGCCAAGTCGCAGACTG
CCGGATAAGGCCATTGACTTACTCGATGAAGCAGCTGCTGCCGTTAAAATTTCAGCTAAAAATAATTTATCCGAACAAAG
TAAGCTAGATAAAAAAGCATCACAGCTTGATGAACAGTTACAAGAAGCGATTATCAATCAAGATTTTGTGCTAGCTAAAA
GCTTAAACAAAGATCTTCAAAAACTTGAAGCCAAACGTGAGAAACTAACGGTTAAAACAAAGTCGTCTCGTGTGAGCGAA
GGTGATGTCTTTGCGGTTGTGTCTAACTTGACTGGCGTGCCTGTCACACAGATGAGCCAAAGTGAGATGACGCGTTTGAT
TAACTTAGAAAAAGAACTCCATAAACGCGTTATCGGTCAAAGCGAAGCCGTTACAGCTGTTGCTAGTGCTATCCGTCGTA
GTCGTTCAGGCATCTCAGATGACAGACGTCCTATGGGTTCCTTCATGTTCTTGGGGCCTACCGGTGTCGGGAAGACAGAG
CTTGCTAAAGCTCTGGCAGAGACCGTTTTCGGCGATGAAAACAGCATGATTCGTATCGATATGAGCGAATATATGGAGAA
ATTTAACACCAGTCGTTTAGTTGGAGCACCTCCTGGCTATGTTGGCTATGACGAGGGCGGTCAGCTAACCGAGCAGGTGC
GCAACAAGCCTTATGCTGTCGTCCTATTTGACGAGGCTGAGAAAGCCCATCCGGATGTCTTTAACCTCCTGCTCCAAATC
CTTGATGACGGCTTCATCACGGATGGTAAGGGGCGCAAGGTAGACTTCCGCAACACAATCATCATCATGACCAGTAACTT
GGGTGCGACCTCATTACGCGACGATAAGACGGTCGGATTTGGTGCAGCCAATGCCTCAACCGACTACGTCGCCATGAAGT
CTAGAATTTTAGAAGAGTTGAAAAAACGGTATCGCCCAGAGTTTCTCAACCGTATCGATGAAAGCATTGTTTTCCACCCA
CTTTCTGAGCAGGAATTATCAGATATCGTAAAAATCATGGCTAAACCATTGATTAAACGTTTGGCAGAACGTCACATCAC
CTTGAAACTTTCTGCCACTGCCTATCAGCTTATCGCTAAAAATGGCTTTGAACCAGAATATGGGGCCCGTCCAATCAGAA
AAGCTTTGGAGAAAAAACTTGAGAATCCTCTGTCGGATAAAATTTTGTCAGGCGAAATTAAGGCTGGAAATAGTGTGACA
GTAGGCGTTTCCAAAGGTGAGTTGACAATCAAAGTTATTGATTAA

Domains

Predicted by InterproScan.

AAA lid domain (AAA_lid_9)

(357-456)

AAA domain (Cdc48 subfamily) (AAA_2)

(543-714)

Clp amino terminal domain, pathogenicity island component (Clp_N)

(19-65)

Clp amino terminal domain, pathogenicity island component (Clp_N)

(91-138)

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

(217-334)

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

(721-801)


Secondary structure

Protein secondary structures were predicted by S4PRED and visualized by seqviz.



3D structure

Source ID Structure
  AlphaFold DB A0A290PWR0

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

62.099

99.509

0.618
  clpC Streptococcus pneumoniae Rx1

49.337

100

0.502
  clpC Streptococcus pneumoniae D39

49.337

100

0.502
  clpC Streptococcus thermophilus LMD-9

49.041

100

0.502
  clpC Streptococcus pneumoniae TIGR4

49.216

100

0.501
  clpC Streptococcus thermophilus LMG 18311

48.801

100

0.5
  clpC Streptococcus mutans UA159

47.368

100

0.486
  clpC Bacillus subtilis subsp. subtilis str. 168

48.112

100

0.485
  clpE Streptococcus pneumoniae TIGR4

46.646

78.747

0.367
  clpE Streptococcus pneumoniae Rx1

46.646

78.747

0.367
  clpE Streptococcus pneumoniae D39

46.646

78.747

0.367
  clpE Streptococcus pneumoniae R6

46.646

78.747

0.367
  clpE Streptococcus mutans UA159

46.178

78.747

0.364

Multiple sequence alignment