Detailed information    

experimental Experimentally validated

Overview

Name   comD/comD2   Type   Regulator
Locus tag   DQL23_RS10745 Genome accession   NZ_LS483341
Coordinates   2182899..2184257 (-) Length   452 a.a.
NCBI ID   WP_060553298.1    Uniprot ID   -
Organism   Streptococcus gordonii strain NCTC7865     
Function   phosphorylation of ComE   
Competence regulation

Function

In S. gordonii, pre-CSP is a 50 aa polypeptide that is cleaved at a double glycine to generate the mature 19 aa residue CSP. This peptide is then exported out of the cell via an ABC-binding cassette transporter encoded by comA and comB. Once a critical concentration of environmental CSP is reached, it is detected by the two-component system ComDE, comprising a membrane-bound histidine kinase (ComD), which phosphorylates the intracellular response regulator ComE. ComE activates a signalling cascade that includes upregulation of the master regulator SigX (designated ComR in S. gordonii), an alternate sigma factor that controls expression of late competence genes encoding DNA uptake and recombination machinery.


Related MGE

Note: This gene co-localizes with putative mobile genetic elements (MGEs) in the genome predicted by VRprofile2, as detailed below.

Gene-MGE association summary

MGE type MGE coordinates Gene coordinates Relative position Distance (bp)
Genomic island 2161911..2187408 2182899..2184257 within 0


Gene organization within MGE regions


Location: 2161911..2187408
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  DQL23_RS10555 (NCTC7865_02129) mreC 2161911..2162726 (-) 816 WP_060554277.1 rod shape-determining protein MreC -
  DQL23_RS10560 (NCTC7865_02129) - 2162794..2162881 (-) 88 WP_060554277.1 tRNA-Ser -
  DQL23_RS10565 (NCTC7865_02129) - 2162892..2162965 (-) 74 WP_060554277.1 tRNA-Ile -
  DQL23_RS10570 (NCTC7865_02129) - 2163001..2163071 (-) 71 WP_060554277.1 tRNA-Gly -
  DQL23_RS10575 (NCTC7865_02129) - 2163085..2163157 (-) 73 WP_060554277.1 tRNA-Phe -
  DQL23_RS10580 (NCTC7865_02129) - 2163161..2163234 (-) 74 WP_060554277.1 tRNA-Met -
  DQL23_RS10585 (NCTC7865_02129) - 2163254..2163343 (-) 90 WP_060554277.1 tRNA-Ser -
  DQL23_RS10590 (NCTC7865_02129) - 2163360..2163433 (-) 74 WP_060554277.1 tRNA-Ile -
  DQL23_RS10595 (NCTC7865_02129) - 2163447..2163520 (-) 74 WP_060554277.1 tRNA-Met -
  DQL23_RS10600 (NCTC7865_02129) - 2163527..2163600 (-) 74 WP_060554277.1 tRNA-Pro -
  DQL23_RS10605 (NCTC7865_02129) - 2163629..2163702 (-) 74 WP_060554277.1 tRNA-Arg -
  DQL23_RS10610 (NCTC7865_02129) - 2163716..2163801 (-) 86 WP_060554277.1 tRNA-Leu -
  DQL23_RS10615 (NCTC7865_02129) - 2163807..2163878 (-) 72 WP_060554277.1 tRNA-Gly -
  DQL23_RS10620 (NCTC7865_02129) - 2163899..2163971 (-) 73 WP_060554277.1 tRNA-Thr -
  DQL23_RS10625 (NCTC7865_02129) - 2163982..2164063 (-) 82 WP_060554277.1 tRNA-Leu -
  DQL23_RS10630 (NCTC7865_02129) - 2164069..2164141 (-) 73 WP_060554277.1 tRNA-Lys -
  DQL23_RS10635 (NCTC7865_02129) - 2164169..2164241 (-) 73 WP_060554277.1 tRNA-Asp -
  DQL23_RS10640 (NCTC7865_02129) - 2164244..2164316 (-) 73 WP_060554277.1 tRNA-Val -
  DQL23_RS10645 (NCTC7865_02129) rrf 2164449..2164564 (-) 116 WP_060554277.1 5S ribosomal RNA -
  DQL23_RS10650 (NCTC7865_02129) - 2164645..2167544 (-) 2900 WP_060554277.1 23S ribosomal RNA -
  DQL23_RS10655 (NCTC7865_02129) - 2167664..2167736 (-) 73 WP_060554277.1 tRNA-Ala -
  DQL23_RS10660 (NCTC7865_02129) - 2167791..2169347 (-) 1557 WP_060554277.1 16S ribosomal RNA -
  DQL23_RS10665 (NCTC7865_02151) comR/comR2 2169631..2170113 (-) 483 WP_045772576.1 sigma-70 family RNA polymerase sigma factor Regulator
  DQL23_RS10670 (NCTC7865_02151) - 2170315..2170388 (-) 74 WP_045772576.1 tRNA-Asn -
  DQL23_RS10675 (NCTC7865_02151) - 2170394..2170465 (-) 72 WP_045772576.1 tRNA-Glu -
  DQL23_RS10680 (NCTC7865_02154) ftsH 2170642..2172624 (-) 1983 WP_060553302.1 ATP-dependent zinc metalloprotease FtsH -
  DQL23_RS10685 (NCTC7865_02155) hpt 2172643..2173185 (-) 543 WP_060553301.1 hypoxanthine phosphoribosyltransferase -
  DQL23_RS10690 (NCTC7865_02156) tilS 2173190..2174467 (-) 1278 WP_060553300.1 tRNA lysidine(34) synthetase TilS -
  DQL23_RS10695 (NCTC7865_02157) - 2174464..2175744 (-) 1281 WP_045772579.1 serine hydrolase -
  DQL23_RS10700 - 2175744..2175863 (-) 120 WP_037622626.1 SP_0009 family protein -
  DQL23_RS10705 (NCTC7865_02158) - 2175866..2176234 (-) 369 WP_012131073.1 FtsB family cell division protein -
  DQL23_RS10710 (NCTC7865_02159) - 2176227..2176493 (-) 267 WP_012131074.1 RNA-binding S4 domain-containing protein -
  DQL23_RS10715 (NCTC7865_02160) mfd 2176559..2180062 (-) 3504 WP_111705915.1 transcription-repair coupling factor -
  DQL23_RS10720 (NCTC7865_02161) pth 2180055..2180624 (-) 570 WP_060553299.1 aminoacyl-tRNA hydrolase -
  DQL23_RS10725 (NCTC7865_02162) ychF 2180698..2181813 (-) 1116 WP_008808030.1 redox-regulated ATPase YchF -
  DQL23_RS10730 (NCTC7865_02162) - 2181923..2181996 (-) 74 WP_008808030.1 tRNA-Asn -
  DQL23_RS10735 (NCTC7865_02162) - 2182002..2182073 (-) 72 WP_008808030.1 tRNA-Glu -
  DQL23_RS10740 (NCTC7865_02165) comE/comE2 2182135..2182902 (-) 768 WP_008808031.1 competence system response regulator transcription factor ComE Regulator
  DQL23_RS10745 (NCTC7865_02166) comD/comD2 2182899..2184257 (-) 1359 WP_060553298.1 competence system sensor histidine kinase ComD Regulator
  DQL23_RS10750 (NCTC7865_02167) comC/comC2 2184273..2184425 (-) 153 WP_008808033.1 bacteriocin Regulator
  DQL23_RS10755 (NCTC7865_02167) - 2184596..2184669 (-) 74 WP_008808033.1 tRNA-Arg -
  DQL23_RS10760 (NCTC7865_02169) rlmH 2184712..2185191 (-) 480 WP_060553297.1 23S rRNA (pseudouridine(1915)-N(3))-methyltransferase RlmH -
  DQL23_RS10765 (NCTC7865_02170) htrA 2185385..2186578 (+) 1194 WP_060553296.1 S1C family serine protease Regulator
  DQL23_RS10770 (NCTC7865_02171) spo0J 2186644..2187408 (+) 765 WP_045772585.1 ParB/RepB/Spo0J family partition protein Regulator

Regulatory network

Positive effect      
Negative effect
Regulator Target Regulation
  comD/comD2 comE/comE2 positive effect
  comE/comE2 comC/comC2 positive effect
  comC/comC2 comD/comD2 positive effect
  comE/comE2 comD/comD2 positive effect

Sequence

Protein


Download         Length: 452 a.a.        Molecular weight: 52956.68 Da        Isoelectric Point: 6.0733

>NTDB_id=419 DQL23_RS10745 WP_060553298.1 2182899..2184257(-) (comD/comD2) [Streptococcus gordonii strain NCTC7865]
MILKIIIAFFPTIIQVVSYEIFHKKIMQSKKIDIKFIGLFFSIVFGISIISSILIEIPSFGDVISSIFHYIFLFIQPLIF
YKYFLKRKEYDNYLNLFLSFVIYLSVETSETFLSVIISSITGDYFVKQHYDIFYIIINLLSLFIILKVVDFFDFYFEYYK
EPIYKNDLYNVNKSYIVIHILLNISHWFSENAHLNSFASMIATIGFIMFLSTLFYLKSAREQHEKAKEIQQKKEEQRQLQ
LYTDEIVGLYNEIRGFRHDYAGMLISLQTGINSGDMKEVERIFHNVLSQANISLRSDDYTFFELNNVQDTALRSVLIQTI
FKARECGVEIVFEMKDVIETLPMKLLDLVRVASVLLNNAVEGAAESPSKTMNVSLVKLDKEIVFVIQNSRQSRYINLEEI
YEVGFSTKGENRGLGLNNVKEIIDKYDEVILETDIETNYFIQVVRFKRKEKI

Nucleotide


Download         Length: 1359 bp        

>NTDB_id=419 DQL23_RS10745 WP_060553298.1 2182899..2184257(-) (comD/comD2) [Streptococcus gordonii strain NCTC7865]
ATGATTTTGAAGATAATAATTGCATTTTTTCCAACTATTATACAAGTTGTTTCTTATGAGATATTTCATAAGAAAATTAT
GCAGAGTAAAAAGATAGATATAAAATTTATTGGTTTATTCTTTAGTATTGTTTTTGGAATTTCAATTATTTCTTCAATTC
TTATTGAAATTCCAAGTTTTGGAGATGTAATAAGTAGTATTTTCCACTATATTTTCCTATTTATTCAACCCCTTATTTTC
TACAAATATTTTCTTAAAAGAAAAGAGTATGATAATTACTTGAATTTGTTTTTATCGTTTGTTATCTATTTATCTGTGGA
GACTTCCGAAACTTTTTTATCTGTCATTATTTCTTCAATAACAGGAGATTATTTTGTAAAACAACATTACGATATTTTTT
ACATTATAATTAATCTTTTATCTTTGTTTATTATTTTAAAGGTTGTTGATTTTTTTGACTTTTATTTTGAATATTATAAA
GAACCAATTTATAAAAATGATCTATATAATGTTAATAAGTCATATATAGTAATTCATATCTTATTAAATATTTCTCATTG
GTTTAGCGAAAACGCACATCTTAATAGTTTTGCTAGTATGATTGCCACTATAGGATTTATTATGTTTTTGTCGACTTTAT
TTTATTTAAAGTCTGCTCGTGAACAACATGAAAAAGCAAAAGAAATTCAGCAAAAAAAGGAAGAACAAAGACAACTACAG
CTTTATACAGATGAAATTGTAGGTCTTTATAACGAAATTCGAGGTTTTCGTCATGATTATGCTGGTATGTTAATAAGTTT
ACAAACAGGAATTAACTCAGGTGATATGAAAGAAGTAGAGAGAATCTTTCATAATGTTTTAAGTCAAGCTAATATTTCCC
TTCGATCAGATGACTATACTTTTTTTGAGTTAAATAATGTTCAAGACACTGCCTTGAGAAGTGTGCTAATTCAAACTATA
TTTAAGGCTCGAGAGTGTGGAGTAGAGATCGTATTTGAAATGAAGGATGTTATTGAGACATTACCTATGAAACTTTTAGA
TTTAGTTCGAGTAGCTAGTGTATTGCTCAATAATGCGGTTGAAGGGGCAGCTGAAAGTCCCTCAAAAACAATGAACGTGT
CTTTAGTAAAGCTAGATAAAGAAATTGTTTTTGTAATTCAGAATTCTCGTCAAAGCCGTTATATTAATTTAGAAGAAATT
TATGAAGTAGGCTTCTCAACAAAAGGAGAAAATCGAGGATTAGGTTTAAATAATGTCAAAGAAATTATTGACAAATATGA
TGAAGTTATTCTGGAAACAGATATAGAAACAAATTATTTTATACAAGTTGTAAGATTTAAAAGAAAGGAAAAAATATGA

Domains

Predicted by InterproScan.

GHKL domain (HATPase_c_5)

(343-444)


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
  comD/comD1 Streptococcus gordonii str. Challis substr. CH1

89.845

100

0.9
  comD/comD1 Streptococcus pneumoniae Rx1

47.42

90.044

0.427
  comD/comD1 Streptococcus pneumoniae R6

47.42

90.044

0.427
  comD/comD1 Streptococcus pneumoniae D39

47.42

90.044

0.427
  comD/comD2 Streptococcus pneumoniae TIGR4

49.468

85.261

0.422
  comD Streptococcus mitis SK321

47.132

88.717

0.418
  comD Streptococcus mitis NCTC 12261

47.044

88.209

0.415

Multiple sequence alignment    



References

[1] L S Håvarstein et al. (1996) Identification of the streptococcal competence-pheromone receptor. Molecular Microbiology 21(4):863-9. [PMID: 8878047]