Detailed information NTG0000297

Experimentally validated

Overview

• Name: clpC
• Type: Regulator
• Locus tag: STER_RS00545
• Genome accession: NC_008532
• Coordinates: 86161..88611 (+)
• Length: 816 a.a.
• NCBI ID: WP_011680614.1
• Uniprot ID: -
• Organism: Streptococcus thermophilus LMD-9
• Function: degradation of ComX Competence regulation

Function

σX degradation is performed by the MecA–ClpCP complex.

Genomic Context

Location: 81161..93611

Locus tag	Gene name	Coordinates (strand)	Size (bp)	Protein ID	Product	Description
STER_RS00515 (STER_0103)	-	81478..82433 (-)	956	Protein_60	S66 family peptidase	-
STER_RS00525 (STER_0105)	rpsB	82956..83723 (+)	768	WP_011680612.1	30S ribosomal protein S2	-
STER_RS00530 (STER_0106)	tsf	83841..84881 (+)	1041	WP_002949105.1	translation elongation factor Ts	-
STER_RS00535 (STER_0107)	-	84991..85461 (-)	471	WP_011680613.1	COG2426 family protein	-
STER_RS00540 (STER_0108)	-	85705..86160 (+)	456	WP_002949111.1	CtsR family transcriptional regulator	-
STER_RS00545 (STER_0109)	clpC	86161..88611 (+)	2451	WP_011680614.1	ATP-dependent Clp protease ATP-binding subunit	Regulator
STER_RS10825 (STER_0110)	pbp3	88739..89971 (-)	1233	Protein_66	D-alanyl-D-alanine carboxypeptidase PBP3	-
STER_RS09950	-	90195..91765 (+)	1571	WP_095559203.1	IS3-like element ISSth1b family transposase	-
STER_RS00565 (STER_0113)	pbp3	91828..93075 (-)	1248	WP_014621034.1	D-alanyl-D-alanine carboxypeptidase PBP3	-

Regulatory network

Positive effect      

Negative effect

Regulator	Target	Regulation
clpC	comX	negative effect
comX	late competence genes	positive effect
comX	late competence genes	positive effect
comR	comX	positive effect
comR	comS	positive effect
comS	comX	positive effect
comS	comS	positive effect
amiD	comS	positive effect
pptA	comS	positive effect
amiE	comS	positive effect
eeP	comS	positive effect
amiA3	comS	positive effect
pptB	comS	positive effect
amiF	comS	positive effect
amiC	comS	positive effect
clpP	comX	negative effect
mecA	comX	negative effect

Sequence

Protein

• Length: 816 a.a.
• Molecular weight: 90404.55 Da
• Isoelectric Point: 5.6107

>NTDB_id=297 STER_RS00545 WP_011680614.1 86161..88611(+) (clpC) [Streptococcus thermophilus LMD-9]
MTIYSRKMQAIFHRAQLEAERFESPFLETWHVLLAMVEVTGSVAYLTFTDFEDRIHSEEIETAAVLAMEKRPKDLSESDI
IDLRAQSPALEAMLQEAQEIASVTGAVEVGSEHVLMAFLLHKDLMVCRLLEVAGFQYKDDSDKPRIIDLRRSLERNAGLS
KQDLKAIHDLRKPKKSKASANFANMMQPPQSSTGELADYTKDLTALAESGNLDPVIGRDEEISRMIQVLSRKTKNNPVLV
GEAGVGKTALALGLAQRIASGEVPFELADMRILELDMMSVVAGTRFRGDFEERMNQIIDEIEADGKIILFIDELHTIIGS
GSGIDSTLDAANILKPALARGTLHMVGATTQAEYQKHIEKDAALSRRFAKITIEEPSVSEAIDILNGLRSSYEDYHRVTI
TDAAVETAVKAAHRYLTSKNLPDSAIDLLDEASATVQVRIKKEDKREITPLDEALISGDIGAAVKQYKANQKAKFPKPAL
VDADQIMQTLSRLSGIPVEKMTQTDSKRYLNLESELHKRVIGQDEAVSAISRAIRRNQSGIRTGKRPIGSFMFLGPTGVG
KTELAKALAEVLFDDESALLRFDMSEYMEKFAASRLNGAPPGYVGYDEGGELTEKVRNKPYSVLLFDEIEKAHPDIFNIL
LQVLDDGVLTDSRGRKVDFSNTIIIMTSNLGATALRDDKTVGFGAQTISHNHQAMQARIMEELKKSYRPEFINRIDEKVV
FHSLEEEQLHDIVKIMVKPLISALADKGISLKFQPAALKHLAKDGYDIEMGARPLRRTIQTQVEDKLSELLLGGQVVSGQ
TLKIGCSKDKLTFTVV

Nucleotide

• Length: 2451 bp

>NTDB_id=297 STER_RS00545 WP_011680614.1 86161..88611(+) (clpC) [Streptococcus thermophilus LMD-9]
ATGACGATATATTCAAGAAAAATGCAGGCCATTTTCCATCGTGCTCAGCTTGAAGCGGAGCGTTTTGAAAGTCCTTTCTT
GGAGACTTGGCATGTGCTTCTGGCTATGGTTGAGGTAACGGGATCTGTAGCCTACTTAACATTTACTGATTTTGAGGACC
GTATTCATTCGGAAGAGATTGAGACAGCTGCTGTATTGGCTATGGAGAAGAGGCCAAAAGACTTATCGGAATCAGATATT
ATCGATTTACGTGCACAGTCACCTGCGCTAGAGGCTATGTTGCAAGAGGCGCAAGAAATCGCTAGTGTTACTGGTGCTGT
AGAGGTGGGGTCTGAACATGTATTGATGGCCTTCCTTCTTCATAAGGATTTAATGGTTTGTCGCCTCCTTGAAGTGGCTG
GTTTTCAATATAAAGATGATAGCGATAAACCTCGCATCATAGATTTACGACGTTCTTTGGAGCGTAATGCTGGTCTTAGC
AAGCAAGATTTGAAGGCAATTCACGATCTTCGTAAACCTAAGAAATCAAAAGCATCTGCGAATTTTGCCAATATGATGCA
ACCTCCTCAATCATCTACTGGTGAACTGGCAGATTATACCAAAGACTTAACTGCATTAGCGGAGTCAGGAAATCTTGATC
CCGTTATTGGACGCGATGAAGAAATTTCACGCATGATTCAGGTTTTGAGTCGTAAAACGAAGAATAATCCTGTCTTGGTA
GGTGAAGCTGGTGTCGGTAAGACAGCACTTGCTCTTGGTTTAGCGCAACGTATTGCTTCAGGCGAAGTACCATTTGAATT
GGCTGATATGCGTATCTTAGAGCTTGACATGATGAGCGTTGTTGCAGGGACACGTTTCCGTGGTGATTTCGAAGAGCGTA
TGAATCAGATCATTGATGAGATTGAAGCTGATGGGAAAATCATTCTCTTTATTGACGAACTACATACGATTATTGGATCT
GGTTCAGGTATTGATAGTACCTTGGATGCGGCTAATATTTTGAAACCGGCCCTTGCGCGCGGGACACTTCACATGGTTGG
AGCAACCACGCAAGCTGAATACCAAAAGCATATTGAGAAAGATGCAGCTTTATCCCGTCGTTTTGCTAAAATTACAATTG
AAGAACCAAGTGTATCTGAAGCAATCGATATTTTAAACGGTTTACGTTCGTCTTATGAAGACTATCATCGTGTGACTATT
ACGGACGCGGCAGTTGAGACGGCAGTCAAGGCAGCGCATCGCTATTTGACGAGTAAGAATTTGCCTGATTCGGCAATTGA
CCTTTTAGATGAAGCGAGTGCAACTGTTCAAGTTCGTATCAAAAAAGAGGACAAACGTGAGATAACGCCTTTGGATGAAG
CACTTATATCTGGGGATATTGGGGCTGCTGTTAAACAGTATAAGGCTAACCAAAAGGCAAAATTTCCTAAACCTGCTTTG
GTAGATGCGGATCAGATTATGCAAACTCTTAGTCGTTTATCAGGTATCCCTGTTGAGAAGATGACGCAGACTGACAGCAA
GCGTTACCTGAATCTTGAATCAGAACTCCACAAACGTGTTATTGGTCAAGATGAGGCGGTTTCGGCTATCAGCCGTGCTA
TTCGTCGTAATCAGTCAGGTATTCGTACTGGAAAACGTCCTATTGGCTCCTTCATGTTCCTTGGACCTACTGGTGTTGGT
AAGACAGAATTGGCTAAGGCTTTGGCGGAAGTTCTCTTTGATGATGAATCAGCTTTGCTTCGCTTTGATATGTCGGAGTA
TATGGAAAAATTTGCGGCTAGTCGCCTTAATGGTGCTCCTCCAGGGTATGTCGGATATGATGAGGGTGGAGAGTTGACAG
AGAAAGTTCGAAATAAGCCCTACTCAGTTCTTCTCTTTGACGAGATTGAGAAAGCTCATCCAGATATCTTCAACATTCTC
TTACAGGTTTTGGATGACGGTGTTTTAACAGATAGCCGTGGTCGTAAGGTTGATTTTTCAAACACTATCATCATTATGAC
CTCAAATTTGGGAGCTACAGCTCTTCGTGATGATAAAACTGTTGGTTTTGGTGCTCAAACTATTTCTCATAATCACCAAG
CCATGCAAGCACGCATTATGGAAGAGCTTAAGAAGTCCTATCGTCCAGAATTTATTAACCGTATTGATGAGAAGGTTGTC
TTCCACAGCTTAGAGGAAGAACAACTACATGACATTGTCAAGATTATGGTTAAACCATTAATTTCAGCTCTAGCCGATAA
AGGTATAAGCTTAAAATTCCAACCAGCTGCTCTTAAGCATTTGGCTAAGGATGGCTATGATATTGAGATGGGAGCTCGTC
CATTACGTCGTACGATTCAAACTCAAGTGGAGGACAAGTTGTCTGAGTTATTACTAGGTGGCCAAGTTGTTAGCGGACAG
ACCCTTAAGATTGGTTGCTCGAAAGATAAATTAACCTTTACAGTAGTGTAA

Domains

Predicted by InterproScan.

• AAA lid domain (AAA_lid_9) (377-454)

• Clp amino terminal domain, pathogenicity island component (Clp_N) (97-135)

• Clp amino terminal domain, pathogenicity island component (Clp_N) (15-45)

• AAA domain (Cdc48 subfamily) (AAA_2) (546-717)

• C-terminal, D2-small domain, of ClpB protein (ClpB_D2-small) (724-804)

• ATPase family associated with various cellular activities (AAA) (AAA) (238-370)

Similar proteins

Only experimentally validated proteins are listed.

Protein	Organism	Identities (%)	Coverage (%)	Ha-value
clpC	Streptococcus thermophilus LMG 18311	99.387	100	0.994
clpC	Streptococcus mutans UA159	72.549	100	0.728
clpC	Streptococcus pneumoniae TIGR4	66.093	100	0.664
clpC	Streptococcus pneumoniae D39	66.093	100	0.664
clpC	Streptococcus pneumoniae Rx1	66.093	100	0.664
clpC	Lactococcus lactis subsp. lactis strain DGCC12653	50.542	100	0.515
clpC	Bacillus subtilis subsp. subtilis str. 168	46.65	100	0.473
clpE	Streptococcus mutans UA159	47.764	83.134	0.397
clpE	Streptococcus pneumoniae TIGR4	46.88	83.112	0.39
clpE	Streptococcus pneumoniae Rx1	46.795	82.979	0.388
clpE	Streptococcus pneumoniae D39	46.795	82.979	0.388
clpE	Streptococcus pneumoniae R6	46.795	82.979	0.388
clpC	Lactococcus lactis subsp. cremoris KW2	46.429	82.353	0.382
clpA	Campylobacter jejuni subsp. jejuni NCTC 11168 = ATCC 700819	41.89	89.563	0.375

References

• [1]: Astrid Wahl et al. (2014) Control of natural transformation in salivarius Streptococci through specific degradation of σX by the MecA-ClpCP protease complex. Journal of Bacteriology 196(15):2807-16. [PMID: 24837292]
• [2]: Céline Boutry et al. (2012) Adaptor protein MecA is a negative regulator of the expression of late competence genes in Streptococcus thermophilus. Journal of Bacteriology 194(7):1777-88. [PMID: 22287513]
• [3]: Truls Johan Biørnstad et al. (2011) ClpC acts as a negative regulator of competence in Streptococcus thermophilus. Microbiology (Reading, England) 157(Pt 6):1676-1684. [PMID: 21436217]