Detailed information    

experimental Experimentally validated

Overview

Name   comYA   Type   Machinery gene
Locus tag   SGO_RS09420 Genome accession   NC_009785
Coordinates   1991692..1992651 (-) Length   319 a.a.
NCBI ID   WP_012130942.1    Uniprot ID   A8AZI0
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: 1986692..1997651
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  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 -
  SGO_RS09430 (SGO_1926) rpoC 1993372..1997019 (-) 3648 WP_008810066.1 DNA-directed RNA polymerase subunit beta' -

Sequence

Protein


Download         Length: 319 a.a.        Molecular weight: 36602.65 Da        Isoelectric Point: 5.4546

>NTDB_id=429 SGO_RS09420 WP_012130942.1 1991692..1992651(-) (comYA) [Streptococcus gordonii str. Challis substr. CH1]
MVQKIAQAIVRQAKEECAQDIYFVPKDDCYELYMRIGDERRFIQTYDFDQLAAVISHFKFLAGMNVGEKRRSQLGSCDYR
YDDKETSIRLSTVGDYRGYESLVIRLLHDEETELKFWFTHFPELREKFKDRGLYLFSGPVGSGKTTLMHQLAQLKFKGQQ
VMSIEDPVEIKQEDMLQLQLNETIGLTYESLIKLSLRHRPDLLIIGEIRDSETARAVVRASLTGATVFSTIHAKSIPGVY
ERLLELGVSEEELKIVLQGICYQRLIGGGGVIDFASDNYQEHEPTVWNQQIDQLLAAGHIHPEQAEAEKIRNQQAKTSY

Nucleotide


Download         Length: 960 bp        

>NTDB_id=429 SGO_RS09420 WP_012130942.1 1991692..1992651(-) (comYA) [Streptococcus gordonii str. Challis substr. CH1]
ATGGTTCAAAAAATTGCCCAGGCGATTGTCCGGCAAGCTAAGGAAGAGTGTGCTCAGGATATTTATTTTGTACCCAAGGA
TGATTGTTATGAACTTTATATGCGGATTGGTGATGAGCGACGCTTTATACAAACTTATGATTTTGACCAGCTAGCCGCTG
TGATTAGTCATTTTAAATTTTTAGCTGGGATGAATGTAGGAGAAAAACGTCGCAGTCAGCTGGGGTCCTGTGATTATCGC
TATGATGATAAGGAAACGTCAATTCGTCTGTCGACAGTAGGCGATTATCGCGGTTATGAAAGTTTAGTTATTCGACTTCT
GCATGACGAAGAGACAGAATTGAAGTTTTGGTTTACTCATTTTCCTGAATTGAGAGAGAAGTTTAAGGACCGAGGACTGT
ATCTTTTTTCGGGACCAGTAGGGAGTGGTAAGACCACTCTCATGCATCAATTAGCTCAACTAAAATTTAAGGGTCAGCAG
GTTATGTCCATTGAAGATCCTGTTGAAATCAAGCAAGAGGATATGCTTCAGCTTCAGCTGAATGAAACGATTGGTCTGAC
TTATGAAAGTCTGATTAAGCTTTCCCTGCGTCACCGTCCGGACTTGCTCATCATTGGAGAAATTCGGGATAGTGAAACTG
CTAGAGCGGTGGTTCGAGCTAGCTTGACGGGAGCTACAGTTTTTTCAACGATTCATGCTAAAAGCATTCCTGGTGTTTAC
GAACGCTTATTGGAATTGGGTGTTAGCGAGGAGGAGTTGAAAATTGTTTTACAGGGTATTTGCTATCAACGCTTGATTGG
GGGAGGAGGTGTGATAGACTTTGCCAGCGACAACTACCAAGAACACGAGCCGACCGTCTGGAATCAGCAGATTGATCAGC
TTCTTGCAGCAGGACATATCCATCCTGAGCAAGCAGAAGCAGAAAAAATTAGGAACCAGCAAGCAAAAACAAGTTATTGA

Domains

Predicted by InterproScan.

Type II/IV secretion system protein (T2SSE)

(9-266)


Secondary structure

Protein secondary structures were predicted by S4PRED and visualized by seqviz.



3D structure

Source ID Structure
  AlphaFold DB A8AZI0

Transmembrane helices

Transmembrane helices of protein were predicted by TMHMM 2.0 and visualized by seqviz and ECharts.


Visualization of predicted probability:


Similar proteins

Only experimentally validated proteins are listed.

Protein Organism Identities (%) Coverage (%) Ha-value
  comGA/cglA/cilD Streptococcus mitis NCTC 12261

78.387

99.042

0.776
  comGA/cglA/cilD Streptococcus pneumoniae TIGR4

78.065

99.042

0.773
  comGA/cglA/cilD Streptococcus pneumoniae R6

78.065

99.042

0.773
  comGA/cglA/cilD Streptococcus pneumoniae D39

78.065

99.042

0.773
  comGA/cglA/cilD Streptococcus pneumoniae Rx1

78.065

99.042

0.773
  comYA Streptococcus mutans UA159

67.093

100

0.671
  comYA Streptococcus mutans UA140

67.093

100

0.671
  comGA/cglA Streptococcus sobrinus strain NIDR 6715-7

65.705

99.048

0.651
  comGA Lactococcus lactis subsp. cremoris KW2

54.114

99.06

0.536
  comGA Latilactobacillus sakei subsp. sakei 23K

40.809

91.892

0.375

Multiple sequence alignment    



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]