Detailed information    

experimental Experimentally validated

Overview

Name   clpC   Type   Regulator
Locus tag   SP_RS11210 Genome accession   NC_003028
Coordinates   2115408..2117840 (-) Length   810 a.a.
NCBI ID   WP_001109712.1    Uniprot ID   A0A0H2USJ7
Organism   Streptococcus pneumoniae TIGR4     
Function   degradation of ComW   
Competence regulation

Function

ComW is a target of the Clp machinery and was shown to be degraded by ClpCP.


Genomic Context

Location: 2110408..2122840
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  SP_RS11190 (SP_2191) - 2112175..2112702 (-) 528 WP_000241918.1 isoprenylcysteine carboxyl methyltransferase family protein -
  SP_RS11195 (SP_2192) hk06 2112785..2114116 (-) 1332 WP_000594671.1 two-component system sensor histidine kinase HK06 -
  SP_RS11200 (SP_2193) rr06 2114113..2114766 (-) 654 WP_001024077.1 two-component system response regulator RR06 -
  SP_RS11210 (SP_2194) clpC 2115408..2117840 (-) 2433 WP_001109712.1 ATP-dependent Clp protease ATP-binding subunit Regulator
  SP_RS11215 (SP_2195) - 2117842..2118300 (-) 459 WP_001211273.1 CtsR family transcriptional regulator -
  SP_RS11220 (SP_2196) - 2118419..2119147 (-) 729 WP_000136224.1 ABC transporter ATP-binding protein -
  SP_RS11225 (SP_2197) - 2119147..2120154 (-) 1008 WP_000754546.1 ABC transporter substrate-binding protein -
  SP_RS11230 (SP_2198) - 2120193..2120951 (-) 759 WP_001813866.1 ABC transporter permease -
  SP_RS11235 (SP_2199) - 2120914..2121204 (-) 291 WP_000647692.1 thiamine-binding protein -
  SP_RS11240 (SP_2201) cbpD 2121460..2122806 (-) 1347 WP_000698569.1 choline binding-anchored murein hydrolase CbpD Auxiliary factor

Regulatory network

Positive effect      
Negative effect
Regulator Target Regulation
  clpC comW negative effect
  comW comX/comX1 positive effect
  comX/comX1 late competence genes positive effect
  comX/comX2 late competence genes positive effect
  comX/comX2 late competence genes positive effect
  comE comX/comX2 positive effect
  clpP comX/comX2 negative effect
  comW comX/comX2 positive effect
  clpE comX/comX2 negative effect
  comX/comX1 late competence genes positive effect
  comE comX/comX1 positive effect
  clpP comX/comX1 negative effect
  clpE comX/comX1 negative effect
  comE comE positive effect
  comE comW positive effect
  comE comA positive effect
  comE comB positive effect
  comE comM positive effect
  comE comD/comD2 positive effect
  comE comC/comC2 positive effect
  comD/comD2 comE positive effect
  stkP comE positive effect
  clpP comW negative effect
  mecA comW negative effect
  comA comC/comC2 positive effect
  comB comC/comC2 positive effect
  comM cbpD negative effect
  comC/comC2 comD/comD2 positive effect
  ciaH comC/comC2 negative effect
  htrA comC/comC2 negative effect
  ciaR comC/comC2 negative effect
  cbpD lytA positive effect
  cbpD lytC positive effect
  ciaH htrA positive effect
  htrA comEC/celB negative effect
  htrA comEA/celA/cilE negative effect
  ciaR htrA positive effect

Sequence

Protein


Download         Length: 810 a.a.        Molecular weight: 90213.94 Da        Isoelectric Point: 5.8612

>NTDB_id=287 SP_RS11210 WP_001109712.1 2115408..2117840(-) (clpC) [Streptococcus pneumoniae TIGR4]
MNYSKALNECIESAYMVAGHFGARYLESWHLLIAMSNHSYSVAGATLNDYPYEMDRLEEVALELTETDYSQDETFTELPF
SRRLQVLFDEAEYVASVVHAKVLGTEHVLYAILHDSNALATRILERAGFSYEDKKDQVKIAALRRNLEERAGWTREDLKA
LRQRHRTVADKQNSMANMMGMPQTPSGGLEDYTHDLTEQARSGKLEPVIGRDKEISRMIQILSRKTKNNPVLVGDAGVGK
TALALGLAQRIASGDVPAEMAKMRVLELDLMNVVAGTRFRGDFEERMNNIIKDIEEDGQVILFIDELHTIMGSGSGIDST
LDAANILKPALARGTLRTVGATTQEEYQKHIEKDAALSRRFAKVTIEEPSVADSMTILQGLKATYEKHHRVQITDEAVET
AVKMAHRYLTSRHLPDSAIDLLDEAAATVQNKAKHVKADDSDLSPADKALMDGKWKQAAQLIAKEEEVPVYKDLVTESDI
LTTLSRLSGIPVQKLTQTDAKKYLNLEAELHKRVIGQDQAVSSISRAIRRNQSGIRSHKRPIGSFMFLGPTGVGKTELAK
ALAEVLFDDESALIRFDMSEYMEKFAASRLNGAPPGYVGYEEGGELTEKVRNKPYSVLLFDEVEKAHPDIFNVLLQVLDD
GVLTDSKGRKVDFSNTIIIMTSNLGATALRDDKTVGFGAKDIRFDQENMEKRMFEELKKAYRPEFINRIDEKVVFHSLSS
DHMQEVVKIMVKPLVASLTEKGIDLKLQASALKLLANQGYDPEMGARPLRRTLQTEVEDKLAELLLKGDLVAGSTLKIGV
KAGQLKFDIA

Nucleotide


Download         Length: 2433 bp        

>NTDB_id=287 SP_RS11210 WP_001109712.1 2115408..2117840(-) (clpC) [Streptococcus pneumoniae TIGR4]
ATGAACTATTCAAAAGCATTGAATGAATGTATCGAAAGTGCCTACATGGTTGCTGGACATTTTGGAGCTCGTTATCTAGA
GTCGTGGCACTTGTTGATTGCCATGTCTAATCACAGTTATAGTGTAGCAGGGGCAACTTTAAATGATTATCCGTATGAGA
TGGACCGTTTAGAAGAGGTGGCTTTGGAACTGACTGAAACGGACTATAGCCAGGATGAAACCTTTACGGAATTGCCGTTC
TCCCGTCGTTTGCAGGTTCTTTTTGATGAAGCAGAGTATGTAGCGTCAGTGGTCCATGCTAAGGTACTAGGGACAGAGCA
CGTCCTCTATGCGATTTTGCATGATAGCAATGCCTTGGCGACTCGTATCTTGGAGAGGGCTGGTTTTTCTTATGAAGACA
AGAAAGATCAGGTCAAGATTGCTGCTCTTCGTCGAAATTTAGAAGAACGGGCAGGCTGGACTCGTGAAGATCTCAAGGCT
TTACGCCAACGCCATCGTACAGTAGCTGACAAGCAAAATTCTATGGCCAATATGATGGGCATGCCGCAGACTCCTAGTGG
TGGTCTCGAGGATTATACGCATGATTTGACAGAGCAAGCGCGTTCTGGCAAGTTAGAACCAGTCATCGGTCGGGACAAGG
AAATCTCACGTATGATTCAAATCTTGAGCCGGAAGACTAAGAACAACCCTGTCTTGGTTGGGGATGCTGGTGTCGGGAAA
ACAGCTCTGGCGCTTGGTCTTGCCCAGCGTATTGCTAGTGGTGACGTGCCTGCGGAAATGGCTAAGATGCGCGTGTTAGA
ACTTGATTTGATGAATGTCGTTGCAGGGACACGCTTCCGTGGTGACTTTGAAGAACGCATGAATAATATCATCAAGGATA
TTGAAGAAGATGGCCAAGTCATCCTCTTTATCGATGAACTCCACACCATCATGGGTTCTGGTAGCGGGATTGATTCGACT
CTGGATGCGGCCAATATCTTGAAACCAGCCTTGGCGCGTGGAACTTTGAGAACGGTTGGTGCCACTACTCAGGAAGAATA
TCAAAAACATATCGAAAAAGATGCGGCACTTTCTCGTCGTTTCGCTAAAGTGACGATTGAAGAACCAAGTGTGGCAGATA
GTATGACTATTTTACAAGGTTTGAAGGCGACTTATGAGAAACATCACCGTGTACAAATCACAGATGAAGCGGTTGAAACA
GCGGTTAAGATGGCTCATCGTTATTTAACCAGTCGTCACTTGCCAGACTCTGCTATCGATCTCTTGGATGAGGCGGCAGC
AACAGTGCAAAATAAGGCAAAGCATGTAAAAGCAGACGATTCAGATTTGAGTCCAGCTGACAAGGCCCTGATGGATGGCA
AGTGGAAACAGGCAGCCCAGCTAATCGCAAAAGAAGAGGAAGTACCTGTCTACAAAGACTTGGTGACAGAGTCTGATATT
TTGACCACCTTGAGTCGCTTGTCAGGAATCCCAGTTCAAAAACTGACTCAAACGGATGCTAAGAAGTATTTAAATCTTGA
AGCAGAACTCCATAAACGGGTTATCGGTCAAGATCAAGCTGTTTCAAGCATTAGCCGTGCCATTCGCCGCAACCAGTCAG
GGATTCGCAGTCATAAGCGTCCGATTGGTTCCTTTATGTTCCTAGGGCCTACAGGTGTCGGGAAAACTGAATTAGCCAAG
GCTCTGGCAGAAGTTCTTTTTGACGACGAATCAGCCCTTATCCGCTTTGATATGAGTGAGTATATGGAGAAATTTGCAGC
TAGTCGTCTCAACGGAGCTCCTCCAGGCTATGTAGGATATGAAGAAGGTGGGGAGTTGACAGAGAAGGTTCGCAATAAAC
CCTATTCCGTTCTCCTCTTTGATGAGGTAGAGAAGGCCCACCCAGATATCTTTAATGTTCTCTTGCAGGTTCTGGATGAC
GGTGTCTTGACAGATAGCAAGGGACGCAAGGTCGATTTTTCAAATACCATTATCATTATGACATCGAATCTAGGTGCGAC
TGCCCTTCGTGATGATAAGACTGTTGGTTTTGGGGCTAAGGATATTCGTTTTGACCAGGAAAATATGGAAAAACGCATGT
TTGAAGAACTGAAAAAAGCTTATAGACCGGAATTCATCAACCGTATTGATGAGAAGGTGGTCTTCCATAGCCTATCTAGT
GATCATATGCAGGAAGTGGTGAAGATTATGGTCAAGCCTTTAGTGGCAAGTTTGACTGAAAAAGGCATTGACTTGAAATT
ACAAGCTTCAGCTCTGAAATTGTTAGCAAATCAAGGATATGACCCAGAGATGGGAGCTCGCCCACTTCGCAGAACCCTGC
AAACAGAAGTGGAGGACAAGTTGGCAGAACTTCTTCTCAAGGGAGATTTAGTGGCAGGCAGCACACTTAAGATTGGTGTC
AAAGCAGGCCAGTTAAAATTTGATATTGCATAA

Domains

Predicted by InterproScan.

Clp amino terminal domain, pathogenicity island component (Clp_N)

(103-139)

AAA domain (Cdc48 subfamily) (AAA_2)

(540-711)

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

(718-797)

AAA lid domain (AAA_lid_9)

(370-444)

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

(231-362)


Secondary structure

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



3D structure

Source ID Structure
  AlphaFold DB A0A0H2USJ7

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 Streptococcus pneumoniae D39

99.506

100

0.995
  clpC Streptococcus pneumoniae Rx1

99.506

100

0.995
  clpC Streptococcus mutans UA159

66.79

100

0.67
  clpC Streptococcus thermophilus LMD-9

66.093

100

0.664
  clpC Streptococcus thermophilus LMG 18311

65.971

100

0.663
  clpC Lactococcus lactis subsp. lactis strain DGCC12653

48.678

100

0.5
  clpC Bacillus subtilis subsp. subtilis str. 168

45.117

99.877

0.451
  clpE Streptococcus mutans UA159

49.194

82.337

0.405
  clpA Campylobacter jejuni subsp. jejuni NCTC 11168 = ATCC 700819

36.541

100

0.396
  clpE Streptococcus pneumoniae D39

46.91

83.91

0.394
  clpE Streptococcus pneumoniae TIGR4

46.91

83.91

0.394
  clpE Streptococcus pneumoniae Rx1

46.91

83.91

0.394
  clpE Streptococcus pneumoniae R6

46.91

83.91

0.394
  clpC Lactococcus lactis subsp. cremoris KW2

46.955

83.422

0.392

Multiple sequence alignment    



References

[1] Andrew Piotrowski et al. (2009) Competence for genetic transformation in Streptococcus pneumoniae: termination of activity of the alternative sigma factor ComX is independent of proteolysis of ComX and ComW. Journal of Bacteriology 191(10):3359-66. [PMID: 19286798]