Detailed information    

insolico Bioinformatically predicted

Overview

Name   clpP   Type   Regulator
Locus tag   PJW02_RS04040 Genome accession   NZ_CP116313
Coordinates   785403..785984 (-) Length   193 a.a.
NCBI ID   WP_001049162.1    Uniprot ID   A0A9W5QPC2
Organism   Bacillus thuringiensis strain Lip     
Function   degradation of ComK; degradation of DegU (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 785403..828016 785403..785984 within 0


Gene organization within MGE regions


Location: 785403..828016
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  PJW02_RS04040 (PJW02_04040) clpP 785403..785984 (-) 582 WP_001049162.1 ATP-dependent Clp endopeptidase proteolytic subunit ClpP Regulator
  PJW02_RS04045 (PJW02_04045) - 786225..787094 (-) 870 WP_000018924.1 DUF421 domain-containing protein -
  PJW02_RS04050 (PJW02_04050) - 787115..787321 (-) 207 WP_000215909.1 DUF1657 domain-containing protein -
  PJW02_RS04055 (PJW02_04055) spoVAE 787333..787683 (-) 351 WP_000575919.1 stage V sporulation protein AE -
  PJW02_RS04060 (PJW02_04060) spoVAD 787680..788696 (-) 1017 WP_000938972.1 stage V sporulation protein AD -
  PJW02_RS04065 (PJW02_04065) spoVAC 788697..789173 (-) 477 WP_000095408.1 stage V sporulation protein AC -
  PJW02_RS04070 (PJW02_04070) - 789203..789691 (-) 489 WP_001226064.1 YhcN/YlaJ family sporulation lipoprotein -
  PJW02_RS04075 (PJW02_04075) - 789785..789991 (-) 207 WP_000216166.1 DUF1657 domain-containing protein -
  PJW02_RS04085 (PJW02_04085) - 790406..791542 (-) 1137 WP_038413879.1 tyrosine-type recombinase/integrase -
  PJW02_RS04090 (PJW02_04090) - 791573..792040 (-) 468 WP_038413877.1 hypothetical protein -
  PJW02_RS04095 (PJW02_04095) - 792051..792443 (-) 393 WP_023523448.1 helix-turn-helix domain-containing protein -
  PJW02_RS04100 (PJW02_04100) - 792608..792838 (+) 231 WP_000216290.1 helix-turn-helix transcriptional regulator -
  PJW02_RS04105 (PJW02_04105) - 792873..793106 (+) 234 WP_023523446.1 DUF771 domain-containing protein -
  PJW02_RS04110 (PJW02_04110) - 793165..793332 (+) 168 WP_172965764.1 hypothetical protein -
  PJW02_RS04115 (PJW02_04115) - 793333..793560 (+) 228 WP_038413873.1 hypothetical protein -
  PJW02_RS04120 (PJW02_04120) - 793561..793911 (+) 351 WP_001209506.1 YqaI family protein -
  PJW02_RS04125 (PJW02_04125) - 793932..794579 (+) 648 WP_003280171.1 sigma-70 family RNA polymerase sigma factor -
  PJW02_RS04130 (PJW02_04130) - 794642..794797 (+) 156 WP_021727747.1 DUF6906 family protein -
  PJW02_RS04135 (PJW02_04135) - 794813..795016 (+) 204 WP_038413868.1 hypothetical protein -
  PJW02_RS04140 (PJW02_04140) - 795016..795297 (+) 282 WP_038413866.1 hypothetical protein -
  PJW02_RS04145 (PJW02_04145) - 795275..795826 (+) 552 WP_038413864.1 host-nuclease inhibitor Gam family protein -
  PJW02_RS04150 (PJW02_04150) - 795829..796425 (+) 597 WP_038413862.1 hypothetical protein -
  PJW02_RS04155 (PJW02_04155) - 796441..797133 (+) 693 WP_038413860.1 AAA family ATPase -
  PJW02_RS04160 (PJW02_04160) - 797133..797612 (+) 480 WP_038413858.1 DUF669 domain-containing protein -
  PJW02_RS04165 (PJW02_04165) - 797679..798059 (+) 381 WP_038413856.1 zinc-finger-containing protein -
  PJW02_RS04170 (PJW02_04170) - 798056..800410 (+) 2355 WP_038413854.1 phage/plasmid primase, P4 family -
  PJW02_RS04175 (PJW02_04175) - 800676..801104 (+) 429 WP_038413852.1 hypothetical protein -
  PJW02_RS04180 (PJW02_04180) - 801107..801481 (+) 375 WP_080703607.1 YopX family protein -
  PJW02_RS04185 (PJW02_04185) - 801478..802017 (+) 540 WP_000617754.1 ERCC4 domain-containing protein -
  PJW02_RS04190 (PJW02_04190) - 802019..802291 (+) 273 WP_000331834.1 hypothetical protein -
  PJW02_RS04195 (PJW02_04195) - 802343..802780 (+) 438 WP_000169951.1 hypothetical protein -
  PJW02_RS04200 (PJW02_04200) - 802850..803113 (+) 264 WP_001216580.1 hypothetical protein -
  PJW02_RS04205 (PJW02_04205) - 803149..803448 (+) 300 WP_038413846.1 hypothetical protein -
  PJW02_RS04210 (PJW02_04210) - 803622..803795 (+) 174 WP_198319674.1 DUF6877 family protein -
  PJW02_RS04215 (PJW02_04215) - 803837..804223 (+) 387 WP_038413844.1 phage protein -
  PJW02_RS04220 (PJW02_04220) - 804423..804812 (+) 390 WP_038413842.1 DUF3942 family protein -
  PJW02_RS04225 (PJW02_04225) - 805125..805295 (+) 171 WP_172965765.1 hypothetical protein -
  PJW02_RS04230 (PJW02_04230) - 805436..805633 (+) 198 WP_038413982.1 hypothetical protein -
  PJW02_RS04235 (PJW02_04235) - 805679..805900 (+) 222 WP_038413841.1 hypothetical protein -
  PJW02_RS04240 (PJW02_04240) - 805897..806220 (+) 324 WP_038413839.1 phage protein -
  PJW02_RS04245 (PJW02_04245) - 806217..806609 (+) 393 WP_038413837.1 HNH endonuclease -
  PJW02_RS04250 (PJW02_04250) - 806694..807131 (+) 438 WP_038413835.1 P27 family phage terminase small subunit -
  PJW02_RS04255 (PJW02_04255) - 807128..808855 (+) 1728 WP_038413833.1 terminase large subunit -
  PJW02_RS04260 (PJW02_04260) - 808871..810076 (+) 1206 WP_038413832.1 phage portal protein -
  PJW02_RS04265 (PJW02_04265) - 810045..810623 (+) 579 WP_038413830.1 HK97 family phage prohead protease -
  PJW02_RS04270 (PJW02_04270) - 810625..811992 (+) 1368 WP_038413828.1 phage major capsid protein -
  PJW02_RS04275 (PJW02_04275) - 811994..812254 (+) 261 WP_038413826.1 head-tail connector protein -
  PJW02_RS04280 (PJW02_04280) - 812235..812564 (+) 330 WP_374203651.1 hypothetical protein -
  PJW02_RS04285 (PJW02_04285) - 812554..812883 (+) 330 WP_038413822.1 hypothetical protein -
  PJW02_RS04290 (PJW02_04290) - 812883..813260 (+) 378 WP_038413820.1 HK97-gp10 family putative phage morphogenesis protein -
  PJW02_RS04295 (PJW02_04295) - 813272..813907 (+) 636 WP_038413819.1 major tail protein -
  PJW02_RS04300 (PJW02_04300) - 813919..814305 (+) 387 WP_000113342.1 hypothetical protein -
  PJW02_RS04305 (PJW02_04305) - 814549..818070 (+) 3522 WP_038413816.1 phage tail tape measure protein -
  PJW02_RS04310 (PJW02_04310) - 818072..818755 (+) 684 WP_038413814.1 phage tail domain-containing protein -
  PJW02_RS04315 (PJW02_04315) - 818752..821094 (+) 2343 WP_038413812.1 phage tail spike protein -
  PJW02_RS04320 (PJW02_04320) - 821109..822389 (+) 1281 WP_038413811.1 BppU family phage baseplate upper protein -
  PJW02_RS04325 (PJW02_04325) - 822439..822648 (+) 210 WP_038413980.1 hemolysin XhlA family protein -
  PJW02_RS04330 (PJW02_04330) - 822650..822853 (+) 204 WP_038413810.1 hypothetical protein -
  PJW02_RS04335 (PJW02_04335) - 822850..823902 (+) 1053 WP_038413809.1 N-acetylmuramoyl-L-alanine amidase -
  PJW02_RS04340 (PJW02_04340) - 824081..824413 (-) 333 WP_038413808.1 hypothetical protein -
  PJW02_RS04345 (PJW02_04345) - 824492..824740 (-) 249 WP_038413806.1 hypothetical protein -
  PJW02_RS04350 (PJW02_04350) - 824755..824961 (-) 207 Protein_796 helix-turn-helix domain-containing protein -
  PJW02_RS04355 (PJW02_04355) - 825054..825887 (-) 834 WP_038413978.1 hypothetical protein -
  PJW02_RS04360 (PJW02_04360) rpoN 826454..827761 (+) 1308 WP_000647955.1 RNA polymerase factor sigma-54 -
  PJW02_RS04365 (PJW02_04365) - 827771..828016 (+) 246 WP_000869730.1 glutaredoxin family protein -

Sequence

Protein


Download         Length: 193 a.a.        Molecular weight: 21419.67 Da        Isoelectric Point: 5.0423

>NTDB_id=776555 PJW02_RS04040 WP_001049162.1 785403..785984(-) (clpP) [Bacillus thuringiensis strain Lip]
MNLIPTVIEQTNRGERAYDIYSRLLKDRIIMLGSAIDDNVANSIVSQLLFLESQDPEKDIHIYINSPGGSITAGMAIYDT
MQFIKPQVSTICIGMAASMGAFLLAAGEKGKRYALPNSEVMIHQPLGGAQGQATEIEIAAKRILFLREKLNQILADRTGQ
PLEVLQRDTDRDNFMTAEKALEYGLIDKIFTNR

Nucleotide


Download         Length: 582 bp        

>NTDB_id=776555 PJW02_RS04040 WP_001049162.1 785403..785984(-) (clpP) [Bacillus thuringiensis strain Lip]
ATGAATTTAATTCCTACAGTAATTGAACAAACAAATCGTGGAGAACGCGCTTACGATATTTACTCTCGACTATTAAAAGA
CCGCATCATTATGCTTGGTAGTGCAATTGATGACAACGTAGCTAACTCAATCGTTTCCCAGCTTTTATTCTTGGAATCTC
AAGATCCAGAAAAAGATATTCACATCTACATCAACAGCCCTGGTGGTTCTATCACAGCAGGTATGGCAATCTATGATACA
ATGCAGTTTATTAAACCACAAGTATCAACAATCTGTATCGGTATGGCAGCATCTATGGGTGCATTCTTACTTGCAGCAGG
TGAAAAAGGAAAACGTTATGCACTTCCAAACAGTGAAGTAATGATTCACCAACCACTTGGCGGAGCACAAGGTCAAGCGA
CTGAAATCGAAATCGCTGCAAAACGTATCCTATTCTTACGTGAAAAACTAAACCAAATTCTTGCTGACCGCACTGGTCAA
CCACTTGAAGTACTACAACGCGACACAGACCGCGACAACTTCATGACAGCAGAAAAAGCTTTAGAATACGGTTTAATCGA
TAAAATCTTTACAAATCGTTAA

Domains

Predicted by InterproScan.

Clp protease (CLP_protease)

(13-192)


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
  clpP Bacillus subtilis subsp. subtilis str. 168

90.104

99.482

0.896
  clpP Campylobacter jejuni subsp. jejuni NCTC 11168 = ATCC 700819

67.021

97.409

0.653
  clpP Streptococcus thermophilus LMG 18311

60.417

99.482

0.601
  clpP Streptococcus thermophilus LMD-9

60.417

99.482

0.601
  clpP Lactococcus lactis subsp. cremoris KW2

58.854

99.482

0.585
  clpP Streptococcus pneumoniae D39

57.292

99.482

0.57
  clpP Streptococcus pneumoniae Rx1

57.292

99.482

0.57
  clpP Streptococcus pneumoniae R6

57.292

99.482

0.57
  clpP Streptococcus pneumoniae TIGR4

57.292

99.482

0.57
  clpP Lactococcus lactis subsp. lactis strain DGCC12653

56.771

99.482

0.565
  clpP Streptococcus pyogenes JRS4

55.729

99.482

0.554
  clpP Streptococcus pyogenes MGAS315

55.729

99.482

0.554
  clpP Streptococcus mutans UA159

55.44

100

0.554