Detailed information NTG0000131

Experimentally validated

Overview

• Name: comA
• Type: Regulator
• Locus tag: SP_RS00255
• Genome accession: NC_003028
• Coordinates: 40816..42969 (+)
• Length: 717 a.a.
• NCBI ID: WP_000668284.1
• Uniprot ID: A0A4J1UYR4
• Organism: Streptococcus pneumoniae TIGR4
• Function: processing and transport of ComC Competence regulation

Function

ComA, a bifunctional ATP-binding cassette transporter, processes the propeptide ComC to produce mature competence-stimulating peptide (CSP) and actively secretes it into the extracellular environment. This secretion is a critical step in the quorum-sensing mechanism that triggers competence development. Once CSP reaches a threshold concentration, it activates the ComDE two-component system, leading to the expression of early competence genes and eventually the late competence genes required for DNA uptake and recombination.

Genomic Context

Location: 35816..47969

Locus tag	Gene name	Coordinates (strand)	Size (bp)	Protein ID	Product	Description
SP_RS00215 (SP_0035)	-	36168..37337 (+)	1170	WP_000366370.1	pyridoxal phosphate-dependent aminotransferase	-
SP_RS00220 (SP_0036)	recO	37334..38104 (+)	771	WP_000616164.1	DNA repair protein RecO	-
SP_RS00225 (SP_0037)	plsX	38101..39093 (+)	993	WP_000717458.1	phosphate acyltransferase PlsX	-
SP_RS00230 (SP_0038)	-	39099..39332 (+)	234	WP_000136447.1	acyl carrier protein	-
SP_RS00235 (SP_0039)	-	39369..39668 (+)	300	Protein_35	transposase family protein	-
SP_RS00240 (SP_0041)	blpU	39871..40101 (+)	231	WP_001093487.1	bacteriocin-like peptide BlpU	-
SP_RS13575	-	40104..40229 (+)	126	WP_000346297.1	PncF family bacteriocin immunity protein	-
SP_RS00255 (SP_0042)	comA	40816..42969 (+)	2154	WP_000668284.1	peptide cleavage/export ABC transporter ComA	Regulator
SP_RS00260 (SP_0043)	comB	42982..44331 (+)	1350	WP_000801611.1	competence pheromone export protein ComB	Regulator
SP_RS00265 (SP_0044)	purC	44501..45208 (+)	708	WP_000043309.1	phosphoribosylaminoimidazolesuccinocarboxamide synthase	-
SP_RS13705	-	45210..45353 (+)	144	WP_050167432.1	hypothetical protein	-

Regulatory network

Positive effect      

Negative effect

Regulator	Target	Regulation
comA	comC/comC2	positive effect
comC/comC2	comD/comD2	positive effect
comD/comD2	comE	positive effect
comE	comE	positive effect
comE	comX/comX1	positive effect
comE	comW	positive effect
comE	comA	positive effect
comE	comB	positive effect
comE	comM	positive effect
comE	comX/comX2	positive effect
comE	comD/comD2	positive effect
comE	comC/comC2	positive effect
stkP	comE	positive effect
comX/comX1	late competence genes	positive effect
clpP	comX/comX1	negative effect
comW	comX/comX1	positive effect
clpE	comX/comX1	negative effect
comW	comX/comX2	positive effect
clpP	comW	negative effect
mecA	comW	negative effect
clpC	comW	negative effect
comB	comC/comC2	positive effect
comM	cbpD	negative effect
comX/comX2	late competence genes	positive effect
clpP	comX/comX2	negative effect
clpE	comX/comX2	negative effect
ciaH	comC/comC2	negative effect
htrA	comC/comC2	negative effect
ciaR	comC/comC2	negative effect
comX/comX2	late competence genes	positive effect
comX/comX1	late competence genes	positive 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

• Length: 717 a.a.
• Molecular weight: 80404.38 Da
• Isoelectric Point: 6.3368

>NTDB_id=131 SP_RS00255 WP_000668284.1 40816..42969(+) (comA) [Streptococcus pneumoniae TIGR4]
MKFGKRHYRPQVDQMDCGVASLAMVFGYYGSYYFLAHLRELAKTTMDGTTALGLVKVAEEIGFETRAIKADMTLFDLPDL
TFPFVAHVLKEGKLLHYYVVTGQDKDSIHIADPDPGVKLTKLPRERFEEEWTGVTLFMAPSPDYKPHKEQKNGLLSFIPI
LVKQRGLIANIVLATLLVTVINIVGSYYLQSIIDTYVPDQMRSTLGIISIGLVIVYIFQQILSYAQEYLLLVLGQRLSID
VILSYIKHVFHLPMSFFATRRTGEIVSRFTDANSIIDALASTILSIFLDVSTVVIISLVLFSQNTNLFFMTLLALPIYTV
IIFAFMKPFEKMNRDTMEANAVLSSSIIEDINGIETIKSLTSESQRYQKIDKEFVDYLKKSFTYSRAESQQKALKKVAHL
LLNVGILWMGAVLVMDGKMSLGQLITYNTLLVYFTNPLENIINLQTKLQTAQVANNRLNEVYLVASEFEEKKTVEDLSLM
KGDMTFKQVHYKYGYGRDVLSDINLTVPQGSKVAFVGISGSGKTTLAKMMVNFYDPSQGEISLGSVNLNQIDKKALRQYI
NYLSQQPYVFNGTILENLLLGAKEGTTQEDILRAVELAEIREDIERMPLNYQTELTSDGAGISGGQRQRIALARALLTDA
PVLILDEATSSLDILTEKRIVDNLIALDKTLIFIAHRLTIAERTEKVVVLDQGKIVEEGKHADLLAQGGFYAHLVNS

Nucleotide

• Length: 2154 bp

>NTDB_id=131 SP_RS00255 WP_000668284.1 40816..42969(+) (comA) [Streptococcus pneumoniae TIGR4]
ATGAAATTTGGGAAACGTCATTATCGTCCGCAGGTGGATCAGATGGACTGCGGTGTAGCTTCATTAGCCATGGTTTTTGG
CTACTATGGTAGTTATTATTTTTTGGCTCACTTGCGAGAATTGGCTAAGACGACCATGGATGGGACGACGGCTTTGGGCT
TGGTCAAGGTGGCAGAGGAGATTGGTTTTGAGACGCGAGCCATTAAGGCAGATATGACGCTTTTTGACTTGCCGGATTTA
ACTTTTCCTTTTGTTGCCCATGTGCTTAAGGAAGGGAAATTGCTCCACTACTATGTGGTGACTGGGCAGGATAAGGATAG
CATTCATATTGCCGATCCAGATCCCGGGGTGAAGTTGACTAAACTGCCACGTGAGCGTTTTGAGGAAGAATGGACAGGAG
TGACTCTTTTTATGGCACCTAGTCCAGACTATAAGCCTCATAAGGAACAAAAAAATGGTCTGCTCTCTTTTATCCCTATA
TTAGTGAAGCAGCGTGGCTTGATTGCCAATATCGTTTTGGCAACACTCTTGGTAACCGTGATTAACATTGTGGGTTCTTA
TTATCTGCAGTCTATCATTGATACCTATGTGCCAGATCAGATGCGTTCGACACTAGGGATTATTTCTATTGGGCTAGTCA
TCGTCTACATCTTCCAGCAAATCTTGTCTTACGCTCAGGAGTATCTCTTGCTTGTTTTGGGGCAACGCTTGTCGATTGAC
GTGATTTTGTCCTATATCAAGCATGTTTTTCACCTCCCTATGTCCTTCTTTGCGACACGCAGGACAGGGGAGATCGTGTC
TCGTTTTACAGATGCTAACAGTATCATCGATGCGCTGGCTTCGACCATCCTTTCGATTTTCCTAGATGTGTCAACGGTTG
TCATTATTTCCCTTGTTCTATTTTCACAAAATACCAATCTCTTTTTCATGACTTTATTGGCGCTTCCTATCTACACAGTG
ATTATCTTTGCCTTTATGAAGCCGTTTGAAAAGATGAATCGGGATACCATGGAAGCCAATGCGGTTCTGTCTTCTTCTAT
CATTGAGGACATCAACGGTATTGAGACTATCAAGTCCTTGACCAGTGAAAGTCAGCGTTACCAAAAAATTGACAAGGAAT
TTGTGGATTATCTGAAGAAATCCTTTACCTATAGTCGAGCAGAGAGTCAGCAAAAGGCTCTGAAAAAGGTTGCCCATCTC
TTGCTTAATGTCGGCATTCTCTGGATGGGGGCTGTTCTGGTCATGGATGGCAAGATGAGTTTGGGGCAGTTGATTACCTA
TAATACCTTGCTGGTTTACTTTACTAATCCTTTGGAAAATATCATCAATCTGCAAACCAAGCTTCAGACAGCGCAGGTTG
CCAATAACCGTCTAAATGAAGTGTATCTAGTAGCTTCTGAGTTTGAGGAGAAGAAAACAGTTGAGGATTTGAGCTTGATG
AAGGGAGATATGACCTTCAAGCAGGTTCATTACAAGTATGGCTATGGTCGAGATGTCTTATCGGATATCAATTTAACCGT
TCCCCAAGGGTCTAAGGTGGCTTTTGTGGGGATTTCAGGGTCAGGTAAGACGACTTTGGCCAAGATGATGGTTAATTTTT
ACGACCCAAGTCAAGGGGAGATTAGTCTGGGTAGTGTCAATCTCAATCAGATTGATAAAAAAGCCCTGCGCCAGTACATC
AACTATCTGTCTCAACAGCCCTATGTCTTTAACGGAACGATTTTGGAGAATCTTCTTTTGGGAGCCAAGGAGGGGACGAC
ACAGGAAGATATCTTACGGGCGGTCGAATTGGCAGAGATTCGAGAGGATATCGAGCGCATGCCACTGAATTACCAGACAG
AATTGACTTCGGATGGGGCAGGGATTTCAGGTGGTCAACGTCAGAGAATCGCTTTGGCGCGTGCTCTCTTGACAGATGCG
CCGGTCTTGATTTTGGATGAGGCGACTAGCAGTTTGGATATTTTGACAGAGAAGCGGATTGTCGATAATCTCATTGCTTT
GGACAAGACCTTGATTTTCATTGCTCACCGCTTGACTATTGCTGAGCGGACAGAGAAGGTAGTTGTCTTGGATCAGGGCA
AGATTGTCGAAGAAGGAAAGCATGCTGATTTGCTTGCACAGGGTGGCTTTTACGCCCATTTGGTCAATAGCTAG

Domains

Predicted by InterproScan.

• ABC transporter (ABC_tran) (500-650)

• Peptidase C39 family (Peptidase_C39) (7-142)

• ABC transporter transmembrane region (ABC_membrane) (170-438)

3D structure

• AlphaFold DB: A0A4J1UYR4

Similar proteins

Only experimentally validated proteins are listed.

Protein	Organism	Identities (%)	Coverage (%)	Ha-value
comA	Streptococcus pneumoniae R6	99.582	100	0.996
comA	Streptococcus pneumoniae D39	99.582	100	0.996
comA	Streptococcus pneumoniae Rx1	99.582	100	0.996
comA	Streptococcus mitis NCTC 12261	98.047	100	0.98
comA	Streptococcus mitis SK321	98.047	100	0.98
comA	Streptococcus gordonii str. Challis substr. CH1	80.195	100	0.802
comA/nlmT	Streptococcus mutans UA159	64.575	100	0.646

References

• [1]: Lin Yu et al. (2023) Structural basis of peptide secretion for Quorum sensing by ComA. Nature Communications 14(1):7178. [PMID: 37935699]
• [2]: Seiji Ishii et al. (2006) Expression and characterization of the peptidase domain of Streptococcus pneumoniae ComA, a bifunctional ATP-binding cassette transporter involved in quorum sensing pathway. The Journal of Biological Chemistry 281(8):4726-31. [PMID: 16377622]
• [3]: M Ramirez et al. (1997) Ubiquitous distribution of the competence related genes comA and comC among isolates of Streptococcus pneumoniae. Microbial Drug Resistance (Larchmont, N.Y.) 3(1):39-52. [PMID: 9109095]
• [4]: L S Håvarstein et al. (1995) An unmodified heptadecapeptide pheromone induces competence for genetic transformation in Streptococcus pneumoniae. Proceedings of The National Academy of Sciences of The United States of America 92(24):11140-4. [PMID: 7479953]
• [5]: L S Håvarstein et al. (1995) A family of bacteriocin ABC transporters carry out proteolytic processing of their substrates concomitant with export. Molecular Microbiology 16(2):229-40. [PMID: 7565085]
• [6]: F M Hui et al. (1991) Genetic transformation in Streptococcus pneumoniae: nucleotide sequence analysis shows comA, a gene required for competence induction, to be a member of the bacterial ATP-dependent transport protein family. Journal of Bacteriology 173(1):372-81. [PMID: 1987129]