Detailed information    

experimental Experimentally validated

Overview

Name   comYC   Type   Machinery gene
Locus tag   SMU_RS09025 Genome accession   NC_004350
Coordinates   1853944..1854258 (-) Length   104 a.a.
NCBI ID   WP_002263437.1    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: 1848944..1859258
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  SMU_RS08985 (SMU.1976c) - 1849011..1849451 (-) 441 WP_002263445.1 hypothetical protein -
  SMU_RS08990 (SMU.1977c) - 1849420..1849665 (-) 246 WP_002263444.1 helix-turn-helix transcriptional regulator -
  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 -

Regulatory network

Positive effect      
Negative effect
Regulator Target Regulation
  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
  irvR comYA negative effect

Sequence

Protein


Download         Length: 104 a.a.        Molecular weight: 11591.60 Da        Isoelectric Point: 10.2206

>NTDB_id=387 SMU_RS09025 WP_002263437.1 1853944..1854258(-) (comYC) [Streptococcus mutans UA159]
MKKIKRVSVRAFTLIEMLVVLLIISILLLLFVPNLTKQKDKVKDTGGSAVVKVVESQAELYELNKTDSATLSKLVASGDI
TQEQANSYKDYYAKHPSKTRHVAN

Nucleotide


Download         Length: 315 bp        

>NTDB_id=387 SMU_RS09025 WP_002263437.1 1853944..1854258(-) (comYC) [Streptococcus mutans UA159]
ATGAAAAAGATCAAGAGAGTCAGTGTACGGGCTTTTACGCTTATAGAAATGTTAGTAGTTCTTCTCATTATTAGTATTCT
TTTACTATTATTTGTTCCTAATTTAACTAAGCAAAAAGATAAGGTAAAAGATACTGGCGGTTCTGCCGTGGTTAAAGTTG
TAGAAAGTCAGGCTGAGCTTTATGAGCTTAATAAAACCGATTCTGCTACTCTTTCTAAATTAGTAGCTAGTGGTGATATT
ACACAAGAACAGGCAAATTCATACAAGGATTACTATGCAAAACACCCAAGTAAAACACGGCATGTCGCGAATTAA

Domains

Predicted by InterproScan.

Prokaryotic N-terminal methylation motif (N_methyl)

(9-30)


Secondary structure

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



3D structure

Source ID Structure

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
  comYC Streptococcus mutans UA140

100

100

1
  comYC Streptococcus gordonii str. Challis substr. CH1

71.429

100

0.721
  comGC/cglC Streptococcus mitis SK321

66.667

95.192

0.635
  comGC/cglC Streptococcus mitis NCTC 12261

69.565

88.462

0.615
  comGC/cglC Streptococcus pneumoniae Rx1

63.636

95.192

0.606
  comGC/cglC Streptococcus pneumoniae D39

63.636

95.192

0.606
  comGC/cglC Streptococcus pneumoniae TIGR4

63.636

95.192

0.606
  comGC/cglC Streptococcus pneumoniae R6

63.636

95.192

0.606
  comYC Streptococcus suis isolate S10

60.227

94.624

0.57
  comGC Lactococcus lactis subsp. cremoris KW2

55.446

97.115

0.538

Multiple sequence alignment    



References

[1] Justin Merritt et al. (2005) A unique nine-gene comY operon in Streptococcus mutans. Microbiology (Reading, England) 151(Pt 1):157-166. [PMID: 15632435]