Detailed information    

experimental Experimentally validated

Overview

Name   comD   Type   Regulator
Locus tag   SMSK321_RS10615 Genome accession   NZ_AEDT01000032
Coordinates   233923..235248 (-) Length   441 a.a.
NCBI ID   WP_001048129.1    Uniprot ID   -
Organism   Streptococcus mitis SK321     
Function   phosphorylation of ComE   
Competence regulation

Function

Upregulated in response to CSP as measured by RNA-seq.


Genomic Context

Location: 228923..240248
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  SMSK321_RS10605 (SMSK321_1632) - 229619..232261 (-) 2643 WP_000472077.1 YhgE/Pip domain-containing protein -
  SMSK321_RS10610 (SMSK321_1633) - 232389..232931 (+) 543 WP_001158273.1 TetR/AcrR family transcriptional regulator -
  SMSK321_RS0102895 comE 233174..233926 (-) 753 WP_000866074.1 competence system response regulator transcription factor ComE Regulator
  SMSK321_RS10615 (SMSK321_1634) comD 233923..235248 (-) 1326 WP_001048129.1 competence system sensor histidine kinase ComD Regulator
  SMSK321_RS0102900 comC 235269..235394 (-) 126 WP_000799685.1 competence-stimulating peptide ComC Regulator
  SMSK321_RS10620 (SMSK321_1635) rlmH 235677..236156 (-) 480 WP_000695928.1 23S rRNA (pseudouridine(1915)-N(3))-methyltransferase RlmH -
  SMSK321_RS10625 (SMSK321_1636) htrA 236340..237521 (+) 1182 WP_000681589.1 S1C family serine protease Regulator
  SMSK321_RS10630 (SMSK321_1637) spo0J 237579..238337 (+) 759 WP_000410371.1 ParB/RepB/Spo0J family partition protein Regulator
  SMSK321_RS10635 (SMSK321_1638) dnaA 238551..239912 (+) 1362 WP_000660604.1 chromosomal replication initiator protein DnaA -

Regulatory network

Positive effect      
Negative effect
Regulator Target Regulation
  comD comE positive effect
  comE comE positive effect
  comE comM positive effect
  comE comX/sigX/comX1/sigX1 positive effect
  comE comC positive effect
  comE comD positive effect
  comE comA positive effect
  comE comX/sigX/comX2/sigX2 positive effect
  comE comW positive effect
  comE comB positive effect
  comM cbpD negative effect
  comX/sigX/comX1/sigX1 late competence genes positive effect
  comW comX/sigX/comX1/sigX1 positive effect
  comC comD positive effect
  comB comC positive effect
  comA comC positive effect
  comX/sigX/comX2/sigX2 late competence genes positive effect
  comW comX/sigX/comX2/sigX2 positive effect
  comX/sigX/comX1/sigX1 late competence genes positive effect
  comX/sigX/comX2/sigX2 late competence genes positive effect

Sequence

Protein


Download         Length: 441 a.a.        Molecular weight: 51278.82 Da        Isoelectric Point: 6.7267

>NTDB_id=514 SMSK321_RS10615 WP_001048129.1 233923..235248(-) (comD) [Streptococcus mitis SK321]
MNLFGVGLVIVYFLIISHSYRLICKGQINRKELYVFSAYILLTEIVLDFPSYLLHLDDLGIVKFLFPLVLYSYFRWIKQY
ERDRGLFLSLLLSLLYESTHNFLSVTLSSLTGDNFVLQYYEPFFFLVTVLTYVVILKIIHYFHLDLNYFDKDYLYPFLTK
VFFALLLLHIVSFVSDMVSTIKHLNSFGSILSSIVFISLLLTFFAMNSHKDQMEKEIALKQKKFEQKHLQNYTDEIVGLY
NEIRGFRHDYAGMLVSMQMAIDSGNLQEIDRVYNEVLVKANHKLRSDKYTYFDLNNIEDSALRSLVAQSIVYARNNGVEF
TLEVKDIITRLPIDLLDLVRIMSVLLNNAVEGSADSYKKQMEVAVIKMETETVIVIQNSCKMTMTPSGDLFALGFSTKGR
NRGVGLNNVKELLDKYNNIILETEMEGSTFRQIIRFKREFE

Nucleotide


Download         Length: 1326 bp        

>NTDB_id=514 SMSK321_RS10615 WP_001048129.1 233923..235248(-) (comD) [Streptococcus mitis SK321]
ATGAATTTATTTGGAGTTGGGTTAGTTATTGTTTATTTTTTAATTATTAGTCACAGTTACCGTTTAATTTGTAAAGGTCA
AATAAATAGAAAAGAACTATACGTTTTTAGTGCTTATATATTACTAACAGAAATAGTACTTGATTTTCCATCATATCTTC
TACATTTAGATGACTTAGGGATTGTAAAATTTTTATTTCCTTTGGTATTATATTCCTATTTTCGATGGATTAAACAGTAT
GAGAGGGATAGAGGACTATTCCTAAGTTTACTACTATCTCTTTTATATGAGAGCACTCATAACTTTTTGTCCGTAACTTT
ATCCTCTCTAACAGGAGACAATTTTGTTTTACAATATTATGAACCATTCTTTTTCCTTGTAACGGTGTTGACTTATGTCG
TTATCTTAAAAATCATTCATTATTTCCATTTGGATCTAAACTATTTTGATAAAGACTACCTCTATCCTTTCTTGACAAAA
GTATTTTTTGCTTTGCTACTGCTCCATATTGTATCTTTCGTTTCAGATATGGTAAGTACGATTAAACATTTGAATAGTTT
TGGAAGTATTTTATCATCTATCGTCTTTATTTCTCTCCTTTTAACCTTTTTTGCAATGAATTCACATAAAGATCAAATGG
AGAAAGAGATTGCTTTGAAGCAGAAGAAATTTGAACAGAAACATTTACAAAACTACACAGATGAAATTGTCGGTTTGTAT
AATGAAATTCGTGGTTTTCGACATGATTATGCTGGGATGCTTGTCAGTATGCAGATGGCAATTGACAGTGGTAATTTACA
GGAAATTGACAGAGTTTACAACGAAGTTTTGGTTAAAGCCAATCACAAACTGCGCTCAGATAAGTACACTTACTTTGATT
TGAACAACATAGAAGATTCAGCTTTACGAAGTTTGGTTGCTCAGTCAATTGTCTATGCTCGAAATAACGGTGTAGAGTTT
ACACTGGAAGTAAAAGATATAATTACTAGACTACCAATAGACCTTCTGGATTTAGTTCGTATTATGAGTGTTTTATTGAA
CAATGCTGTCGAAGGATCGGCTGATAGTTATAAAAAGCAGATGGAAGTAGCAGTTATTAAGATGGAAACTGAAACAGTGA
TTGTGATTCAGAATTCATGTAAAATGACGATGACTCCTTCAGGAGATCTATTTGCTTTAGGATTCTCTACTAAGGGAAGA
AATCGCGGAGTAGGATTAAATAATGTGAAAGAACTACTGGATAAGTACAACAACATTATTTTAGAAACAGAGATGGAAGG
CAGTACATTTAGACAAATCATTAGATTTAAGAGGGAATTTGAATGA

Domains

Predicted by InterproScan.

GHKL domain (HATPase_c_5)

(335-434)


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/comD2 Streptococcus pneumoniae TIGR4

92.063

100

0.921
  comD/comD1 Streptococcus pneumoniae R6

92.063

100

0.921
  comD/comD1 Streptococcus pneumoniae D39

92.063

100

0.921
  comD/comD1 Streptococcus pneumoniae Rx1

92.063

100

0.921
  comD Streptococcus mitis NCTC 12261

85.261

100

0.853
  comD/comD1 Streptococcus gordonii str. Challis substr. CH1

46.682

93.157

0.435
  comD/comD2 Streptococcus gordonii strain NCTC7865

47.132

88.717

0.418

Multiple sequence alignment    



References

[1] G Salvadori et al. (2018) High-resolution profiles of the Streptococcus mitis CSP signaling pathway reveal core and strain-specific regulated genes. BMC Genomics 19(1):453. [PMID: 29898666]