Detailed information    

experimental Experimentally validated

Overview

Name   comFA/cflA   Type   Machinery gene
Locus tag   SPD_RS10765 Genome accession   NC_008533
Coordinates   2013457..2014755 (-) Length   432 a.a.
NCBI ID   WP_000867601.1    Uniprot ID   A0A0B7LBE5
Organism   Streptococcus pneumoniae D39     
Function   ssDNA transport into the cell   
DNA binding and uptake

Function

ComFA is a cytoplasmic driven helicase that processes internalized single-stranded DNA (ssDNA) and facilitates its integration into the genome.


Genomic Context

Location: 2008457..2019755
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  SPD_RS10745 (SPD_2031) rplI 2009612..2010064 (-) 453 WP_000864220.1 50S ribosomal protein L9 -
  SPD_RS10750 (SPD_2032) - 2010061..2012034 (-) 1974 WP_000715109.1 DHH family phosphoesterase -
  SPD_RS10755 (SPD_2033) hpf 2012170..2012718 (-) 549 WP_000599104.1 ribosome hibernation-promoting factor, HPF/YfiA family -
  SPD_RS10760 (SPD_2034) comFC/cflB 2012798..2013460 (-) 663 WP_000649974.1 ComF family protein Machinery gene
  SPD_RS10765 (SPD_2035) comFA/cflA 2013457..2014755 (-) 1299 WP_000867601.1 DEAD/DEAH box helicase Machinery gene
  SPD_RS10770 (SPD_2036) - 2014811..2015446 (+) 636 WP_000395739.1 YigZ family protein -
  SPD_RS10775 (SPD_2037) cysK 2015731..2016651 (+) 921 WP_000029860.1 cysteine synthase A -
  SPD_RS10785 (SPD_2038) - 2016890..2017240 (-) 351 Protein_1996 IS66 family transposase -
  SPD_RS10790 - 2017240..2017511 (+) 272 Protein_1997 transposase -
  SPD_RS10795 (SPD_2040) tnpB 2017702..2017989 (-) 288 WP_000973412.1 IS66 family insertion sequence element accessory protein TnpB -
  SPD_RS10800 (SPD_2041) tsf 2018235..2019275 (-) 1041 WP_000808063.1 translation elongation factor Ts -

Sequence

Protein


Download         Length: 432 a.a.        Molecular weight: 49562.56 Da        Isoelectric Point: 8.5992

>NTDB_id=236 SPD_RS10765 WP_000867601.1 2013457..2014755(-) (comFA/cflA) [Streptococcus pneumoniae D39]
MKVNLDYLGRLFTENELTEEERQLAEKLPAMRKEKGKLFCQRCNSTILEEWYLPIGAYYCRECLLMKRVRSDQTLYYFPQ
EDFPKQDVLKWRGQLTPFQEKVSEGLLQAVDKQKPTLVHAVTGAGKTEMIYQVVAKVINAGGAVCLASPRIDVCLELYKR
LQQDFSCGIALLHGESEPYFRTPLVVATTHQLLKFYQAFDLLIVDEVDAFPYVDNPMLYHAVKNSVKENGLRIFLTATST
NELDKKVRLGELKRLNLPRRFHGNPLIIPKPIWLSDFNRYLDKNRLSPKLKSYIEKQRKTAYPLLIFASEIKKGEQLAEI
LQEQFPNEKIGFVSSVTEDRLEQVQAFRDGELTILISTTILERGVTFPCVDVFVVEANHRLFTKSSLIQIGGRVGRSMDR
PTGDLLFFHDGLNASIKKAIKEIQMMNKEAGL

Nucleotide


Download         Length: 1299 bp        

>NTDB_id=236 SPD_RS10765 WP_000867601.1 2013457..2014755(-) (comFA/cflA) [Streptococcus pneumoniae D39]
ATGAAAGTAAATTTAGATTATCTCGGTCGTTTATTTACTGAGAATGAATTAACAGAAGAAGAACGTCAGTTGGCGGAGAA
ACTTCCAGCAATGAGAAAGGAGAAGGGGAAACTTTTCTGTCAACGTTGTAATAGTACTATTCTAGAAGAATGGTATTTGC
CCATCGGTGCTTACTATTGTCGAGAGTGCTTGCTGATGAAGCGAGTCAGAAGTGATCAAACTTTATACTATTTTCCGCAG
GAGGATTTTCCGAAGCAAGATGTTCTCAAATGGCGCGGCCAATTAACTCCTTTTCAAGAGAAGGTGTCAGAGGGACTGCT
TCAAGCAGTAGACAAGCAAAAGCCAACCTTAGTTCATGCGGTAACAGGAGCTGGAAAGACAGAAATGATTTATCAAGTAG
TGGCTAAAGTGATCAATGCGGGTGGTGCAGTGTGTTTGGCTAGTCCTCGCATAGATGTTTGTTTGGAGCTGTACAAGCGC
CTGCAACAGGATTTTTCTTGCGGAATAGCTTTGCTACATGGAGAATCGGAACCTTATTTTCGAACACCACTAGTTGTTGC
AACAACCCATCAGTTATTGAAGTTTTATCAAGCTTTTGATTTGCTGATAGTGGATGAAGTAGATGCTTTTCCTTATGTTG
ATAATCCCATGCTTTACCACGCTGTCAAGAATAGTGTAAAGGAGAATGGATTGAGAATCTTTTTAACAGCGACTTCGACC
AATGAGTTAGATAAAAAGGTCCGTTTAGGAGAACTAAAAAGACTGAATTTACCGAGACGGTTTCATGGAAATCCGTTGAT
TATTCCAAAACCAATTTGGTTATCGGATTTTAATCGCTACTTAGACAAGAATCGTTTGTCACCAAAGTTAAAGTCCTATA
TTGAGAAGCAGAGAAAGACAGCTTATCCGTTACTCATTTTTGCTTCAGAAATTAAGAAAGGGGAGCAGTTAGCAGAAATC
TTACAGGAGCAATTTCCAAATGAGAAAATTGGCTTTGTATCTTCTGTAACAGAGGATCGATTAGAGCAAGTACAAGCTTT
TCGAGATGGAGAACTGACAATACTTATCAGTACGACAATCTTGGAGCGTGGAGTTACCTTCCCTTGTGTGGATGTTTTCG
TAGTAGAGGCCAATCATCGTTTGTTTACCAAGTCTAGTTTGATTCAGATTGGTGGACGAGTTGGACGAAGCATGGATAGA
CCGACAGGAGATTTGCTTTTCTTCCATGATGGGTTAAATGCTTCAATCAAGAAGGCGATTAAGGAAATTCAGATGATGAA
TAAGGAGGCTGGTCTATGA

Domains

Predicted by InterproScan.

Type III restriction enzyme, res subunit (ResIII)

(94-238)

Helicase conserved C-terminal domain (Helicase_C)

(293-396)


Secondary structure

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



3D structure

Source ID Structure
  AlphaFold DB A0A0B7LBE5

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 pneumoniae R6

100

100

1
  comFA/cflA Streptococcus pneumoniae Rx1

100

100

1
  comFA/cflA Streptococcus pneumoniae TIGR4

99.769

100

0.998
  comFA/cflA Streptococcus mitis NCTC 12261

93.519

100

0.935
  comFA/cflA Streptococcus mitis SK321

92.361

100

0.924
  comFA Lactococcus lactis subsp. cremoris KW2

52.451

94.884

0.498
  comFA Latilactobacillus sakei subsp. sakei 23K

38.979

99.769

0.389

Multiple sequence alignment    



References

[1] Amy Diallo et al. (2017) Bacterial transformation: ComFA is a DNA-dependent ATPase that forms complexes with ComFC and DprA. Molecular Microbiology 105(5):741-754. [PMID: 28618091]
[2] Scott N Peterson et al. (2004) Identification of competence pheromone responsive genes in Streptococcus pneumoniae by use of DNA microarrays. Molecular Microbiology 51(4):1051-70. [PMID: 14763980]
[3] Mathieu Bergé et al. (2002) Uptake of transforming DNA in Gram-positive bacteria: a view from Streptococcus pneumoniae. Molecular Microbiology 45(2):411-21. [PMID: 12123453]