Detailed information    

experimental Experimentally validated

Overview

Name   comGA   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   Q8DS49
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) comGI 1850234..1851433 (-) 1200 WP_002263443.1 acetate kinase Machinery gene
  SMU_RS09000 (SMU.1979c) comGH 1851492..1852445 (-) 954 WP_002263442.1 class I SAM-dependent methyltransferase Machinery gene
  SMU_RS09005 (SMU.1980c) comGG 1852500..1852889 (-) 390 WP_002263441.1 competence type IV pilus minor pilin ComGG Machinery gene
  SMU_RS09010 (SMU.1981c) comGF 1852867..1853301 (-) 435 WP_002263440.1 competence type IV pilus minor pilin ComGF Machinery gene
  SMU_RS09015 (SMU.1982c) comGE 1853288..1853581 (-) 294 WP_002263439.1 competence type IV pilus minor pilin ComGE Machinery gene
  SMU_RS09020 (SMU.1983) comGD 1853553..1853957 (-) 405 WP_002263438.1 competence type IV pilus minor pilin ComGD Machinery gene
  SMU_RS09025 (SMU.1984) comGC 1853944..1854258 (-) 315 WP_002263437.1 competence type IV pilus major pilin ComGC Machinery gene
  SMU_RS09030 (SMU.1985) comGB 1854258..1855289 (-) 1032 WP_255262721.1 competence type IV pilus assembly protein ComGB Machinery gene
  SMU_RS09035 (SMU.1987) comGA 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 comGA negative effect
  irvR comGC negative effect
  irvR comGF negative effect
  irvR comGG negative effect
  irvR negative effect
  irvR comGD negative effect
  irvR dprA negative effect
  irvR comGB negative effect
  irvR comGE negative effect
  irvR comGH negative effect
  irvR comGI negative effect

Sequence

Protein


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

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

Nucleotide


Download         Length: 942 bp        

>NTDB_id=385 SMU_RS09035 WP_002263435.1 1855225..1856166(-) (comGA) [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)


Secondary structure

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



3D structure

Source ID Structure
  AlphaFold DB Q8DS49

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 Streptococcus mutans UA140

99.681

100

0.997
  comGA 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 TIGR4

65.916

99.361

0.655
  comGA/cglA/cilD Streptococcus pneumoniae Rx1

65.916

99.361

0.655
  comGA/cglA/cilD Streptococcus pneumoniae D39

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 Lactococcus lactis subsp. cremoris KW2

52.412

99.361

0.521
  comGA Latilactobacillus sakei subsp. sakei 23K

38.909

92.905

0.361

Multiple sequence alignment    



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]