Detailed information    

experimental Experimentally validated

Overview

Name   comFA   Type   Machinery gene
Locus tag   KW2_RS05130 Genome accession   NC_022369
Coordinates   1057446..1058738 (-) Length   430 a.a.
NCBI ID   WP_021037147.1    Uniprot ID   -
Organism   Lactococcus lactis subsp. cremoris KW2     
Function   ssDNA transport into the cell   
DNA binding and uptake

Function

ComX induce the expression of late competence genes.


Genomic Context

Location: 1052446..1063738
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  KW2_RS05100 (kw2_1028) - 1053459..1054427 (+) 969 WP_021037143.1 PhoH family protein -
  KW2_RS05105 (kw2_1029) - 1054497..1054985 (+) 489 WP_021037144.1 NUDIX hydrolase -
  KW2_RS05110 (kw2_1030) ybeY 1055215..1055703 (+) 489 WP_011835335.1 rRNA maturation RNase YbeY -
  KW2_RS05115 (kw2_1031) - 1055687..1056142 (+) 456 WP_011676094.1 diacylglycerol kinase family protein -
  KW2_RS05120 (kw2_1032) - 1056159..1056737 (+) 579 WP_021037145.1 nucleotidyltransferase family protein -
  KW2_RS12255 comFC 1056796..1057200 (-) 405 WP_244878749.1 ComF family protein Machinery gene
  KW2_RS05130 (kw2_1034) comFA 1057446..1058738 (-) 1293 WP_021037147.1 DEAD/DEAH box helicase Machinery gene
  KW2_RS05135 (kw2_1035) - 1058795..1059430 (+) 636 WP_011835331.1 YigZ family protein -
  KW2_RS05140 (kw2_1036) - 1059472..1059972 (+) 501 WP_021037148.1 VanZ family protein -
  KW2_RS05145 (kw2_1037) - 1060038..1061057 (+) 1020 WP_021037149.1 DUF475 domain-containing protein -
  KW2_RS05150 (kw2_1038) - 1061167..1061934 (+) 768 WP_021037150.1 hypothetical protein -
  KW2_RS05155 (kw2_1039) - 1062171..1062818 (+) 648 WP_021037151.1 GIY-YIG nuclease family protein -

Regulatory network

Positive effect      
Negative effect
Regulator Target Regulation
  comX comFA positive effect
  comX comGG positive effect
  comX comEA positive effect
  comX ssbB positive effect
  comX comGD positive effect
  comX dprA positive effect
  comX coiA positive effect
  comX comGB positive effect
  comX recA positive effect
  comX comFC positive effect
  comX comGE positive effect
  comX comGF positive effect
  comX comEC positive effect
  comX comGA positive effect
  comX comGC positive effect
  mecA comX negative effect
  clpC comX negative effect
  clpP comX negative effect

Sequence

Protein


Download         Length: 430 a.a.        Molecular weight: 49303.43 Da        Isoelectric Point: 9.9358

>NTDB_id=593 KW2_RS05130 WP_021037147.1 1057446..1058738(-) (comFA) [Lactococcus lactis subsp. cremoris KW2]
MNLILENLLGHLLLEKDISAFNNFTDQVNNENKLIKIGAMTSVNANKVRCNRCGTIHIKTNVKLPIGAFFCPTCLELGRV
RSDEYFYHLPQQDFPEKTYLRWTGKLTENQEKISDALCQQITNNQKLLVQAVTGAGKTEMIYQLIEQILSHGGSVGLASP
RIDVCIELHQRLSRDFTCQIPLLYHEGDSYFRSPLVVMTSHQLLRFKEAFDLLIIDEVDAFPFRDNDMLYFALENAKKIN
GTLLYLTATSTDKLDKQIKKHEIKRLFLPRRFHGHPLVIPMFFWKKTFYKKFIEQRKTGFPLLIFVAEIDFGQDFAKNLQ
EKFPKEKMAFVASTTKSRKTIVEAFRKKQVSILITTSILERGVTFSSIDVFVINSEHPNFTKSALIQMAGRVGRDSKRPT
GLVSFFHSGKSLAMCQAQKEIKKMNRLGGF

Nucleotide


Download         Length: 1293 bp        

>NTDB_id=593 KW2_RS05130 WP_021037147.1 1057446..1058738(-) (comFA) [Lactococcus lactis subsp. cremoris KW2]
ATGAACTTAATTTTAGAAAATCTCCTTGGGCATCTTTTACTAGAAAAAGATATTTCAGCTTTTAATAATTTTACTGACCA
AGTTAACAATGAAAACAAATTAATTAAAATTGGTGCAATGACATCTGTCAATGCTAATAAAGTAAGATGTAATCGATGTG
GCACGATTCATATAAAAACCAATGTTAAACTTCCGATTGGTGCTTTTTTCTGTCCAACTTGTCTTGAACTTGGTCGTGTC
CGCTCAGATGAATATTTCTACCATCTTCCTCAACAAGACTTTCCAGAAAAAACTTATTTACGTTGGACTGGAAAATTAAC
AGAAAATCAAGAAAAAATTTCTGACGCTCTCTGTCAGCAAATTACTAATAATCAAAAACTACTTGTTCAAGCCGTTACTG
GTGCTGGTAAAACAGAAATGATATATCAGCTTATTGAACAAATTCTTAGCCATGGGGGTTCGGTCGGTTTAGCCAGCCCA
AGAATTGATGTATGCATTGAGCTTCATCAACGTTTATCACGTGATTTCACTTGTCAAATTCCCCTTTTGTATCATGAGGG
AGATTCTTATTTTCGTTCGCCTTTGGTCGTTATGACCAGTCATCAACTTTTACGTTTCAAAGAGGCCTTTGATTTGCTTA
TCATCGATGAAGTCGATGCCTTTCCTTTTAGAGATAATGACATGCTTTATTTCGCTCTTGAAAATGCTAAAAAAATTAAT
GGAACCTTGCTCTACTTAACCGCTACATCTACTGACAAATTAGACAAACAGATAAAAAAGCATGAAATTAAACGACTTTT
TTTACCACGCCGCTTTCACGGTCATCCTTTGGTCATTCCAATGTTTTTTTGGAAAAAAACATTTTATAAAAAATTCATTG
AGCAAAGAAAGACTGGTTTCCCACTTCTAATTTTCGTTGCCGAAATCGACTTTGGTCAAGACTTTGCCAAAAATTTACAA
GAAAAATTTCCAAAAGAAAAAATGGCTTTTGTCGCTTCAACAACTAAAAGCAGAAAAACGATTGTCGAAGCTTTTCGCAA
GAAACAAGTTTCGATTTTAATTACGACTTCTATTCTTGAACGAGGCGTAACTTTTTCTTCAATTGATGTTTTTGTCATTA
ATAGCGAACACCCTAATTTCACAAAATCTGCCCTCATTCAAATGGCCGGACGAGTGGGACGCGACTCTAAACGTCCAACA
GGTTTAGTTAGTTTTTTTCACTCTGGAAAATCTTTAGCCATGTGTCAAGCTCAGAAAGAAATTAAAAAAATGAACCGACT
CGGAGGTTTTTAA

Domains

Predicted by InterproScan.

Helicase conserved C-terminal domain (Helicase_C)

(290-394)

Type III restriction enzyme, res subunit (ResIII)

(105-249)


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
  comFA/cflA Streptococcus mitis SK321

50.228

100

0.512
  comFA/cflA Streptococcus mitis NCTC 12261

49.772

100

0.507
  comFA/cflA Streptococcus pneumoniae TIGR4

52.451

94.884

0.498
  comFA/cflA Streptococcus pneumoniae Rx1

52.451

94.884

0.498
  comFA/cflA Streptococcus pneumoniae R6

52.451

94.884

0.498
  comFA/cflA Streptococcus pneumoniae D39

52.451

94.884

0.498
  comFA Bacillus subtilis subsp. subtilis str. 168

36.08

100

0.377

Multiple sequence alignment    



References

[1] Blandine David et al. (2017) Natural DNA Transformation Is Functional in Lactococcus lactis subsp. cremoris KW2. Applied And Environmental Microbiology 83(16):e01074-17. [PMID: 28625996]