Detailed information NTG0000385

Experimentally validated

Overview

• Name: comYA
• Type: Machinery gene
• Locus tag: SMU_RS09035
• Genome accession: NC_004350
• Coordinates: 1855225..1856166 (-)
• Length: 313 a.a.
• NCBI ID: WP_002263435.1
• Uniprot ID: -
• Organism: Streptococcus mutans UA159
• Function: dsDNA binding to the cell surface; assembly of the pseudopilus DNA binding and uptake

Function

RT-PCR analysis of the orf junctions confirmed that all nine orfs of comY operon were present in a single transcript, while real-time RT-PCR analysis demonstrated that these orfs were expressed at a level very similar to that of the first orf in the operon. Mutations were constructed in all nine putative orfs. The first seven genes (comYA-G) were found to be essential for natural competence, while comYH and comYI had reduced and normal natural competence ability, respectively.

Genomic Context

Location: 1850225..1861166

Locus tag	Gene name	Coordinates (strand)	Size (bp)	Protein ID	Product	Description
SMU_RS08995 (SMU.1978)	comYI	1850234..1851433 (-)	1200	WP_002263443.1	acetate kinase	Machinery gene
SMU_RS09000 (SMU.1979c)	comYH	1851492..1852445 (-)	954	WP_002263442.1	class I SAM-dependent methyltransferase	Machinery gene
SMU_RS09005 (SMU.1980c)	comYG	1852500..1852889 (-)	390	WP_002263441.1	competence type IV pilus minor pilin ComGG	Machinery gene
SMU_RS09010 (SMU.1981c)	comYF	1852867..1853301 (-)	435	WP_002263440.1	competence type IV pilus minor pilin ComGF	Machinery gene
SMU_RS09015 (SMU.1982c)	comYE	1853288..1853581 (-)	294	WP_002263439.1	competence type IV pilus minor pilin ComGE	Machinery gene
SMU_RS09020 (SMU.1983)	comYD	1853553..1853957 (-)	405	WP_002263438.1	competence type IV pilus minor pilin ComGD	Machinery gene
SMU_RS09025 (SMU.1984)	comYC	1853944..1854258 (-)	315	WP_002263437.1	competence type IV pilus major pilin ComGC	Machinery gene
SMU_RS09030 (SMU.1985)	comYB	1854258..1855289 (-)	1032	WP_255262721.1	competence type IV pilus assembly protein ComGB	Machinery gene
SMU_RS09035 (SMU.1987)	comYA	1855225..1856166 (-)	942	WP_002263435.1	competence type IV pilus ATPase ComGA	Machinery gene
SMU_RS09040 (SMU.1988c)	-	1856296..1856679 (-)	384	WP_002263434.1	DUF1033 family protein	-
SMU_RS09045 (SMU.1989)	rpoC	1856807..1860436 (-)	3630	WP_002263433.1	DNA-directed RNA polymerase subunit beta'	-

Regulatory network

Positive effect      

Negative effect

Regulator	Target	Regulation
irvR	comYA	negative effect
irvR	comYC	negative effect
irvR	comYF	negative effect
irvR	comYG	negative effect
irvR		negative effect
irvR	comYD	negative effect
irvR	dprA	negative effect
irvR	comYB	negative effect
irvR	comYE	negative effect
irvR	comYH	negative effect
irvR	comYI	negative effect

Sequence

Protein

• Length: 313 a.a.
• Molecular weight: 35739.09 Da
• Isoelectric Point: 8.0347

>NTDB_id=385 SMU_RS09035 WP_002263435.1 1855225..1856166(-) (comYA) [Streptococcus mutans UA159]
MVQKLGRKIIAEAVQNKAQDIYIIPKKESYELYMRIGNERRFIDVYDHHFMANLISHFKFVAGMNVGEKRRSQLGSCDYS
YDEGKVISLRLSSVGDYRGYESLVIRLLFSGRHDLKFWFNSMDLILNEIKGRGLYLFSGPVGSGKTSLMYQLVKLRFETK
QVITIEDPVEIKQDNMLQLQLNESIDMTYDNLIKLSLRHRPDILIIGEIRDKETARAVIRASLTGAMVFSTIHAKSIPGV
YARMLELGTSSEELQNALRGIVYQRLIGGGGIIDFAKGDYQNHSAKKWNKQIYDLFTAGYITEGEAQAEEIED

Nucleotide

• Length: 942 bp

>NTDB_id=385 SMU_RS09035 WP_002263435.1 1855225..1856166(-) (comYA) [Streptococcus mutans UA159]
ATGGTTCAAAAATTAGGTAGAAAAATCATTGCCGAAGCTGTTCAAAATAAAGCACAAGATATCTATATTATTCCTAAAAA
AGAATCTTATGAGCTTTATATGAGAATAGGGAATGAAAGGAGGTTCATTGATGTTTATGACCATCATTTCATGGCTAATC
TTATTAGTCACTTTAAATTTGTTGCAGGAATGAATGTTGGTGAGAAAAGACGAAGTCAGCTGGGCTCTTGTGATTATTCT
TATGATGAAGGGAAAGTTATTTCATTAAGGTTATCAAGTGTAGGAGATTATCGTGGTTATGAAAGTTTGGTTATTCGCTT
ACTTTTTTCTGGACGTCACGATTTAAAATTCTGGTTTAACAGTATGGATTTGATTTTAAATGAAATCAAGGGGCGAGGGC
TTTATCTTTTTTCGGGTCCAGTTGGAAGTGGCAAAACAAGTTTGATGTATCAATTGGTAAAACTAAGATTTGAGACCAAA
CAGGTAATTACCATTGAAGATCCTGTGGAAATTAAGCAAGATAATATGTTACAACTGCAGCTTAATGAAAGCATTGATAT
GACTTATGATAATTTAATTAAATTATCTCTGAGGCATCGTCCGGATATTTTAATTATTGGAGAAATTCGAGATAAAGAAA
CCGCCAGAGCTGTTATTAGAGCAAGTCTTACAGGGGCAATGGTATTCTCAACTATCCATGCTAAAAGCATTCCAGGTGTT
TATGCTAGGATGTTAGAATTGGGTACTAGTTCAGAAGAATTACAAAATGCTTTGCGTGGTATTGTTTATCAACGTTTAAT
AGGGGGAGGAGGGATTATTGACTTTGCCAAAGGGGATTATCAAAACCACTCAGCAAAAAAGTGGAACAAACAAATTTATG
ACCTTTTTACAGCAGGATATATCACTGAAGGAGAAGCACAAGCAGAAGAAATTGAAGATTAA

Domains

Predicted by InterproScan.

• Type II/IV secretion system protein (T2SSE) (8-267)

Similar proteins

Only experimentally validated proteins are listed.

Protein	Organism	Identities (%)	Coverage (%)	Ha-value
comYA	Streptococcus mutans UA140	99.681	100	0.997
comYA	Streptococcus gordonii str. Challis substr. CH1	67.093	100	0.671
comGA/cglA	Streptococcus sobrinus strain NIDR 6715-7	66.026	99.681	0.658
comGA/cglA/cilD	Streptococcus pneumoniae Rx1	65.916	99.361	0.655
comGA/cglA/cilD	Streptococcus mitis NCTC 12261	65.916	99.361	0.655
comGA/cglA/cilD	Streptococcus pneumoniae R6	65.916	99.361	0.655
comGA/cglA/cilD	Streptococcus pneumoniae D39	65.916	99.361	0.655
comGA/cglA/cilD	Streptococcus pneumoniae TIGR4	65.916	99.361	0.655
comGA	Lactococcus lactis subsp. cremoris KW2	52.412	99.361	0.521
comGA	Latilactobacillus sakei subsp. sakei 23K	38.909	92.905	0.361

References

• [1]: Zachary D Moye et al. (2016) Effects of Carbohydrate Source on Genetic Competence in Streptococcus mutans. Applied And Environmental Microbiology 82(15):4821-4834. [PMID: 27260355]
• [2]: Kinda Seaton et al. (2015) Regulation of competence and gene expression in Streptococcus mutans by the RcrR transcriptional regulator. Molecular Oral Microbiology 30(2):147-159. [PMID: 25146832]
• [3]: Kinda Seaton et al. (2011) A transcriptional regulator and ABC transporters link stress tolerance, (p)ppGpp, and genetic competence in Streptococcus mutans. Journal of Bacteriology 193(4):862-74. [PMID: 21148727]
• [4]: Sang-Joon Ahn et al. (2006) Multilevel control of competence development and stress tolerance in Streptococcus mutans UA159. Infection And Immunity 74(3):1631-42. [PMID: 16495534]
• [5]: Justin Merritt et al. (2005) A unique nine-gene comY operon in Streptococcus mutans. Microbiology (Reading, England) 151(Pt 1):157-166. [PMID: 15632435]