Detailed information NTG0000430

Experimentally validated

Overview

• Name: comYB
• Type: Machinery gene
• Locus tag: SGO_RS09415
• Genome accession: NC_009785
• Coordinates: 1990746..1991780 (-)
• Length: 344 a.a.
• NCBI ID: WP_012130941.1
• Uniprot ID: A8AZH9
• Organism: Streptococcus gordonii str. Challis substr. CH1
• Function: dsDNA binding to the cell surface; assembly of the pseudopilus DNA binding and uptake

Function

comYA appeared to be part of a putative operon encompassing a comGB homolog, designated comYB, together with sequences that could encode ComGC- and ComGD-like peptides designated ComYC and ComYD, respectively, as well as other components. Northern analysis identified a single 6.0-kb comYA-containing transcript strictly dependent on exogenous competence factor for expression in ComA1 cells. An identical pattern of expression was seen in wild-type Challis cells grown under conditions of maximal competence but not in cells that were noncompetent.

Genomic Context

Location: 1985746..1996780

Locus tag	Gene name	Coordinates (strand)	Size (bp)	Protein ID	Product	Description
SGO_RS09375 (SGO_1915)	-	1986009..1986674 (-)	666	WP_012130933.1	CPBP family intramembrane glutamic endopeptidase	-
SGO_RS09380 (SGO_1916)	-	1986722..1987912 (-)	1191	WP_012130934.1	acetate kinase	-
SGO_RS09385 (SGO_1917)	comYH	1987962..1988915 (-)	954	WP_012130935.1	class I SAM-dependent methyltransferase	Machinery gene
SGO_RS09390 (SGO_1918)	comGG	1988946..1989377 (-)	432	WP_223341947.1	competence type IV pilus minor pilin ComGG	-
SGO_RS09395 (SGO_1919)	comGF/cglF	1989358..1989795 (-)	438	WP_012130937.1	competence type IV pilus minor pilin ComGF	Machinery gene
SGO_RS09400 (SGO_1920)	comGE/cglE	1989779..1990072 (-)	294	WP_012130938.1	competence type IV pilus minor pilin ComGE	Machinery gene
SGO_RS09405 (SGO_1921)	comYD	1990044..1990472 (-)	429	WP_012130939.1	competence type IV pilus minor pilin ComGD	Machinery gene
SGO_RS09410 (SGO_1922)	comYC	1990432..1990749 (-)	318	WP_012130940.1	competence type IV pilus major pilin ComGC	Machinery gene
SGO_RS09415 (SGO_1923)	comYB	1990746..1991780 (-)	1035	WP_012130941.1	competence type IV pilus assembly protein ComGB	Machinery gene
SGO_RS09420 (SGO_1924)	comYA	1991692..1992651 (-)	960	WP_012130942.1	competence type IV pilus ATPase ComGA	Machinery gene
SGO_RS09425 (SGO_1925)	-	1992753..1993121 (-)	369	WP_012130943.1	DUF1033 family protein	-

Sequence

Protein

• Length: 344 a.a.
• Molecular weight: 39068.14 Da
• Isoelectric Point: 9.1924

>NTDB_id=430 SGO_RS09415 WP_012130941.1 1990746..1991780(-) (comYB) [Streptococcus gordonii str. Challis substr. CH1]
MISFLQQDISILSKQKQKKLGTSKQKQVIELFNNLFSSGFHLAETVDFLGRSALLEKNYVQQMRQGLANGQAFSEIMASL
GFSDAVVTQLSLAELHGNLSLALLKIEEYLDNLAKVKKKLIEVATYPMMLLGFLVLIMIGLRNYLLPQLSSQNFATQLIG
HLPTIFLLTVLMLLGLTGAIYLVFKGQKRIPVYSFLARLPFVGSFVRIYLTAYYAREWGNMIGQGLELSQIFQIMQEQRS
VLFQEIGQDLGQALQNGQEFSDKIASYPFFKKELSLIIEYGEVKSKLGSELEIYALKTWEEFFGRVNRTMNLIQPLVFVF
VALMIVLLYAAMLLPLYQNMEVHL

Nucleotide

• Length: 1035 bp

>NTDB_id=430 SGO_RS09415 WP_012130941.1 1990746..1991780(-) (comYB) [Streptococcus gordonii str. Challis substr. CH1]
TTGATCAGCTTCTTGCAGCAGGACATATCCATCCTGAGCAAGCAGAAGCAGAAAAAATTAGGAACCAGCAAGCAAAAACA
AGTTATTGAACTGTTTAATAATTTATTCTCTAGTGGTTTTCATCTGGCTGAGACTGTAGATTTTTTAGGTCGAAGCGCTC
TTTTGGAGAAGAACTATGTCCAGCAAATGCGTCAGGGTCTGGCTAATGGACAAGCATTTTCAGAGATTATGGCTAGTCTA
GGATTTTCTGATGCAGTAGTAACCCAGCTGTCATTGGCTGAGTTACATGGGAATTTATCGCTCGCCTTGCTAAAAATAGA
GGAGTATTTGGATAATCTTGCGAAGGTAAAAAAGAAGTTAATTGAAGTAGCAACCTATCCCATGATGCTTCTTGGCTTTT
TGGTATTGATTATGATAGGATTGAGAAATTACCTTTTACCCCAACTCAGCAGTCAAAATTTTGCCACTCAACTCATTGGC
CATTTACCGACTATTTTTCTACTAACTGTCTTAATGTTACTTGGATTAACAGGAGCGATTTATCTGGTATTCAAAGGTCA
GAAACGGATTCCTGTATACTCTTTCTTGGCCCGCCTGCCTTTTGTTGGATCCTTTGTAAGGATTTACCTAACCGCCTATT
ATGCGCGTGAATGGGGCAATATGATTGGACAAGGTTTGGAGCTCAGTCAGATTTTCCAGATTATGCAAGAGCAACGCTCG
GTTTTATTTCAGGAAATTGGCCAGGATTTGGGTCAAGCCTTGCAGAATGGTCAAGAATTTTCAGATAAAATTGCTTCTTA
CCCTTTTTTCAAAAAAGAATTGTCTCTAATCATCGAATATGGGGAAGTCAAATCCAAGCTGGGAAGTGAACTAGAAATTT
ATGCCCTTAAGACTTGGGAAGAATTTTTTGGCAGGGTCAATCGGACCATGAATCTGATTCAGCCCCTAGTCTTTGTCTTT
GTAGCCTTGATGATTGTCTTACTGTATGCGGCAATGTTATTGCCCCTTTATCAAAATATGGAGGTTCATCTATGA

Domains

Predicted by InterproScan.

• Type II secretion system (T2SS), protein F (T2SSF) (30-147)

• Type II secretion system (T2SS), protein F (T2SSF) (215-335)

3D structure

• AlphaFold DB: A8AZH9

Similar proteins

Only experimentally validated proteins are listed.

Protein	Organism	Identities (%)	Coverage (%)	Ha-value
comGB/cglB	Streptococcus mitis SK321	72.619	99.408	0.722
comGB/cglB	Streptococcus mitis NCTC 12261	72.321	99.408	0.719
comGB/cglB	Streptococcus pneumoniae Rx1	71.131	99.408	0.707
comGB/cglB	Streptococcus pneumoniae TIGR4	71.131	99.408	0.707
comGB/cglB	Streptococcus pneumoniae R6	71.131	99.408	0.707
comGB/cglB	Streptococcus pneumoniae D39	71.131	99.408	0.707
comYB	Streptococcus mutans UA140	60.35	100	0.604
comYB	Streptococcus mutans UA159	60.058	100	0.601
comGB	Lactococcus lactis subsp. cremoris KW2	51.929	98.827	0.513

References

• [1]: R D Lunsford et al. (1997) comYA, a gene similar to comGA of Bacillus subtilis, is essential for competence-factor-dependent DNA transformation in Streptococcus gordonii. Journal of Bacteriology 179(10):3122-6. [PMID: 9150204]