Detailed information NTG0000247

Experimentally validated

Overview

• Name: comA
• Type: Regulator
• Locus tag: KZH43_RS00220
• Genome accession: NZ_CP079923
• Coordinates: 41902..44055 (+)
• Length: 717 a.a.
• NCBI ID: WP_000668290.1
• Uniprot ID: A0A0B7KN15
• Organism: Streptococcus pneumoniae Rx1
• 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.

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)
IScluster/Tn	39018..41500	41902..44055	flank	402

Gene organization within MGE regions

Location: 39018..44055

Locus tag	Gene name	Coordinates (strand)	Size (bp)	Protein ID	Product	Description
KZH43_RS00210 (KZH43_00210)	blpU	39514..39744 (+)	231	WP_001093075.1	bacteriocin-like peptide BlpU	-
KZH43_RS10285	-	39747..39872 (+)	126	WP_000346297.1	PncF family bacteriocin immunity protein	-
KZH43_RS00220 (KZH43_00220)	comA	41902..44055 (+)	2154	WP_000668290.1	peptide cleavage/export ABC transporter ComA	Regulator

Regulatory network

Positive effect      

Negative effect

Regulator	Target	Regulation
comA	comC/comC1	positive effect
comC/comC1	comD/comD1	positive effect
comD/comD1	comE	positive effect
comE	comA	positive effect
comE	comD/comD1	positive effect
comB	comC/comC1	positive effect
comE	comB	positive effect
ciaR	comC/comC1	negative effect
ciaR	htrA	positive effect
ciaH	comC/comC1	negative effect
ciaH	htrA	positive effect
comE	comC/comC1	positive effect
comE	comE	positive effect
comE	comX/comX1	positive effect
comE	comX/comX2	positive effect
comE	comM	positive effect
comE	comW	positive effect
stkP	comE	positive effect
htrA	comC/comC1	negative effect
htrA	comEA/celA/cilE	negative effect
htrA	comEC/celB	negative effect
comX/comX1	late competence genes	positive effect
comW	comX/comX1	positive effect
clpE	comX/comX1	negative effect
clpP	comX/comX1	negative effect
comX/comX2	late competence genes	positive effect
comW	comX/comX2	positive effect
clpE	comX/comX2	negative effect
clpP	comX/comX2	negative effect
comM	cbpD	negative effect
clpC	comW	negative effect
clpP	comW	negative effect
mecA	comW	negative effect
comX/comX1	late competence genes	positive effect
comX/comX2	late competence genes	positive effect
cbpD	lytA	positive effect
cbpD	lytC	positive effect

Sequence

Protein

• Length: 717 a.a.
• Molecular weight: 80350.38 Da
• Isoelectric Point: 6.3368

>NTDB_id=247 KZH43_RS00220 WP_000668290.1 41902..44055(+) (comA) [Streptococcus pneumoniae Rx1]
MKFGKRHYRPQVDQMDCGVASLAMVFGYYGSYYFLAHLRELAKTTMDGTTALGLVKVAEEIGFETRAIKADMTLFDLPDL
TFPFVAHVLKEGKLLHYYVVTGQDKDSIHIADPDPGVKLTKLPRERFEEEWTGVTLFMAPSPDYKPHKEQKNGLLSFIPI
LVKQRGLIANIVLATLLVTVINIVGSYYLQSIIDTYVPDQMRSTLGIISIGLVIVYILQQILSYAQEYLLLVLGQRLSID
VILSYIKHVFHLPMSFFATRRTGEIVSRFTDANSIIDALASTILSIFLDVSTVVIISLVLFSQNTNLFFMTLLALPIYTV
IIFAFMKPFEKMNRDTMEANAVLSSSIIEDINGIETIKSLTSESQRYQKIDKEFVDYLKKSFTYSRAESQQKALKKVAHL
LLNVGILWMGAVLVMDGKMSLGQLITYNTLLVYFTNPLENIINLQTKLQTAQVANNRLNEVYLVASEFEEKKTVEDLSLM
KGDMTFKQVHYKYGYGRDVLSDINLTVPQGSKVAFVGISGSGKTTLAKMMVNFYDPSQGEISLGGVNLNQIDKKALRQYI
NYLPQQPYVFNGTILENLLLGAKEGTTQEDILRAVELAEIREDIERMPLNYQTELTSDGAGISGGQRQRIALARALLTDA
PVLILDEATSSLDILTEKRIVDNLIALDKTLIFIAHRLTIAERTEKVVVLDQGKIVEEGKHADLLAQGGFYAHLVNS

Nucleotide

• Length: 2154 bp

>NTDB_id=247 KZH43_RS00220 WP_000668290.1 41902..44055(+) (comA) [Streptococcus pneumoniae Rx1]
ATGAAATTTGGGAAACGTCACTATCGTCCGCAAGTGGATCAGATGGACTGCGGTGTAGCTTCATTAGCCATGGTTTTTGG
CTACTATGGTAGTTATTATTTTTTGGCTCACTTGCGAGAATTGGCTAAGACGACCATGGATGGGACGACGGCTTTGGGCT
TGGTTAAGGTGGCAGAGGAGATTGGTTTTGAGACGCGAGCCATTAAGGCGGATATGACGCTTTTTGACTTGCCGGATTTG
ACTTTTCCTTTTGTTGCCCATGTGCTTAAGGAAGGGAAATTGCTCCACTACTATGTGGTGACTGGGCAGGATAAGGATAG
CATTCATATTGCCGATCCAGATCCCGGGGTGAAGTTGACTAAACTGCCACGTGAGCGTTTTGAGGAAGAATGGACAGGAG
TGACTCTTTTTATGGCACCTAGTCCAGACTATAAGCCTCATAAGGAACAAAAAAATGGTCTGCTCTCTTTTATCCCTATA
TTAGTGAAGCAGCGTGGCTTGATTGCCAATATCGTTTTGGCAACACTCTTGGTAACCGTGATTAACATTGTGGGTTCTTA
TTATCTGCAGTCTATCATTGATACCTATGTGCCAGATCAGATGCGTTCGACACTAGGGATTATTTCTATTGGGCTAGTCA
TCGTCTACATCCTCCAGCAAATCTTGTCTTACGCTCAGGAGTATCTCTTGCTTGTTTTGGGGCAACGCTTGTCGATTGAC
GTGATTTTGTCCTATATCAAGCATGTTTTTCACCTCCCTATGTCCTTCTTTGCGACACGCAGGACAGGGGAGATCGTGTC
TCGTTTTACAGATGCTAACAGTATCATCGATGCGCTGGCTTCGACCATCCTTTCGATTTTCCTAGATGTGTCAACGGTTG
TCATTATTTCCCTTGTTCTATTTTCACAAAATACCAATCTCTTTTTCATGACTTTATTGGCGCTTCCTATCTACACAGTG
ATTATCTTTGCCTTTATGAAGCCGTTTGAAAAGATGAATCGGGATACCATGGAAGCCAATGCGGTTCTGTCTTCTTCTAT
CATTGAGGACATCAACGGTATTGAGACTATCAAGTCCTTGACCAGTGAAAGTCAGCGTTACCAAAAAATTGACAAGGAAT
TTGTGGATTATCTGAAGAAATCCTTTACCTATAGTCGAGCAGAGAGTCAGCAAAAGGCTCTGAAAAAGGTTGCCCATCTC
TTGCTTAATGTCGGCATTCTCTGGATGGGGGCTGTTCTGGTCATGGATGGCAAGATGAGTTTGGGGCAGTTGATTACCTA
TAATACCTTGCTGGTTTACTTTACCAATCCTTTGGAAAATATCATCAATCTGCAAACCAAGCTTCAGACAGCGCAGGTTG
CCAATAACCGTCTAAATGAAGTGTATCTAGTAGCTTCTGAGTTTGAGGAGAAGAAAACAGTTGAGGATTTGAGCTTGATG
AAGGGAGATATGACCTTCAAGCAGGTTCATTACAAGTATGGCTATGGTCGAGACGTCTTGTCGGATATCAATTTAACCGT
TCCCCAAGGGTCTAAGGTGGCTTTTGTGGGGATTTCAGGGTCAGGTAAGACGACTTTGGCCAAGATGATGGTTAATTTTT
ACGACCCAAGTCAAGGGGAGATTAGTCTGGGTGGTGTCAATCTCAATCAGATTGATAAAAAAGCCCTGCGCCAGTACATC
AACTATCTGCCTCAACAGCCCTATGTCTTTAACGGAACGATTTTGGAGAATCTTCTTTTGGGAGCCAAGGAGGGGACGAC
ACAGGAAGATATCTTACGGGCGGTCGAATTGGCAGAGATTCGAGAGGATATCGAGCGCATGCCACTGAATTATCAGACAG
AATTGACTTCGGATGGGGCAGGGATTTCAGGTGGTCAACGTCAGAGAATCGCTTTGGCGCGTGCTCTCTTGACAGATGCG
CCGGTCTTGATTTTGGATGAGGCGACTAGCAGTTTGGATATTTTGACAGAGAAGCGGATTGTCGATAATCTCATTGCTTT
GGACAAGACCTTGATTTTCATTGCTCACCGCTTGACTATTGCTGAGCGGACAGAGAAGGTGGTTGTCTTGGATCAGGGCA
AGATTGTCGAAGAAGGAAAGCATGCTGATTTGCTTGCACAGGGAGGCTTTTACGCCCATTTGGTCAATAGCTAG

Domains

Predicted by InterproScan.

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

• ABC transporter (ABC_tran) (500-650)

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

3D structure

• AlphaFold DB: A0A0B7KN15

Similar proteins

Only experimentally validated proteins are listed.

Protein	Organism	Identities (%)	Coverage (%)	Ha-value
comA	Streptococcus pneumoniae D39	100	100	1
comA	Streptococcus pneumoniae R6	100	100	1
comA	Streptococcus pneumoniae TIGR4	99.582	100	0.996
comA	Streptococcus mitis NCTC 12261	98.466	100	0.985
comA	Streptococcus mitis SK321	98.466	100	0.985
comA	Streptococcus gordonii str. Challis substr. CH1	80.614	100	0.806
comA/nlmT	Streptococcus mutans UA159	64.854	100	0.649

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]