Detailed information    

insolico Bioinformatically predicted

Overview

Name   comF   Type   Machinery gene
Locus tag   VSAL_RS23735 Genome accession   NC_011312
Coordinates   241885..242241 (+) Length   118 a.a.
NCBI ID   WP_269447613.1    Uniprot ID   -
Organism   Aliivibrio salmonicida LFI1238     
Function   ssDNA transport into the cell (predicted from homology)   
DNA binding and uptake

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)
IS/Tn 240896..241777 241885..242241 flank 108


Gene organization within MGE regions


Location: 240896..242241
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  VSAL_RS01270 (VSAL_I0201) - 240896..241777 (+) 882 WP_012548944.1 IS982-like element ISVsa6 family transposase -
  VSAL_RS23735 comF 241885..242241 (+) 357 WP_269447613.1 ComF family protein Machinery gene

Sequence

Protein


Download         Length: 118 a.a.        Molecular weight: 13603.89 Da        Isoelectric Point: 10.7421

>NTDB_id=31668 VSAL_RS23735 WP_269447613.1 241885..242241(+) (comF) [Aliivibrio salmonicida LFI1238]
MPVPLHWKRFWWRSYNQSDLLGWTLAREFNLEKTVTLCDTKIVKRIKATRPQQGLSRSFRQTNLLGAFKVMKQINEKHVA
IVDDVVTTGATINLLCAELRKAGVERIDVYAVCRTGRS

Nucleotide


Download         Length: 357 bp        

>NTDB_id=31668 VSAL_RS23735 WP_269447613.1 241885..242241(+) (comF) [Aliivibrio salmonicida LFI1238]
ATCCCCGTACCTTTACATTGGAAACGCTTTTGGTGGCGATCCTATAATCAAAGCGATTTATTAGGATGGACGTTAGCAAG
AGAATTCAATCTTGAAAAAACCGTGACTCTCTGCGATACCAAAATAGTAAAAAGAATTAAAGCCACTCGCCCTCAGCAAG
GGTTATCTCGATCTTTTCGTCAAACCAACTTACTCGGTGCGTTTAAGGTGATGAAGCAGATTAATGAGAAGCATGTGGCG
ATTGTGGATGATGTGGTGACGACGGGGGCGACAATTAATCTGTTGTGTGCGGAGTTGAGAAAGGCGGGAGTTGAGCGGAT
TGATGTGTATGCGGTTTGCCGGACGGGGCGGAGTTAA

Domains

Predicted by InterproScan.

Phosphoribosyl transferase domain (Pribosyltran)

(25-115)


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
  comF Vibrio cholerae strain A1552

51.327

95.763

0.492
  comF Haemophilus influenzae 86-028NP

44.068

100

0.441
  comF Haemophilus influenzae Rd KW20

44.068

100

0.441
  comF Vibrio campbellii strain DS40M4

43.363

95.763

0.415
  comF Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

39.13

97.458

0.381
  comFC Legionella pneumophila strain ERS1305867

37.391

97.458

0.364
  comFC Legionella pneumophila str. Paris

37.391

97.458

0.364

Multiple sequence alignment