Detailed information    

experimental Experimentally validated

Overview

Name   comF   Type   Machinery gene
Locus tag   PG_RS00735 Genome accession   NC_002950
Coordinates   180315..181055 (+) Length   246 a.a.
NCBI ID   WP_005875257.1    Uniprot ID   A0A0E2LU95
Organism   Porphyromonas gingivalis W83     
Function   ssDNA transport into the cell   
DNA binding and uptake

Function

The comF gene product is critical for W83 uptake of exogenous DNA and reinforces the concept that the major DNA exchange machinery in P. gingivalis strain W83 is competence based.


Genomic Context

Location: 175315..186055
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  PG_RS00715 (PG0153) aspS 175757..177520 (-) 1764 WP_005875297.1 aspartate--tRNA ligase -
  PG_RS12000 - 177706..177954 (-) 249 WP_143733557.1 DUF1661 domain-containing protein -
  PG_RS00720 (PG0155) ribD 177951..178943 (-) 993 WP_005875259.1 bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase RibD -
  PG_RS00725 (PG0156) prmC 178968..179849 (+) 882 WP_005875312.1 peptide chain release factor N(5)-glutamine methyltransferase -
  PG_RS00730 (PG0157) - 179846..180331 (+) 486 WP_004583801.1 regulatory protein RecX -
  PG_RS00735 (PG0158) comF 180315..181055 (+) 741 WP_005875257.1 ComF family protein Machinery gene
  PG_RS00740 (PG0159) - 181185..183254 (-) 2070 WP_005875347.1 M13 family metallopeptidase -
  PG_RS00745 (PG0160) - 183273..184175 (-) 903 WP_005875328.1 nucleotidyltransferase family protein -
  PG_RS00750 (PG0162) - 184595..185176 (-) 582 WP_004583806.1 RNA polymerase sigma factor -

Sequence

Protein


Download         Length: 246 a.a.        Molecular weight: 27475.95 Da        Isoelectric Point: 10.0451

>NTDB_id=1423 PG_RS00735 WP_005875257.1 180315..181055(+) (comF) [Porphyromonas gingivalis W83]
MRKTANGTGRHIRLLIRKVLDLFFPRYCPVCDSLLAETEIGVCPRCMVRMPRYIEGMQYGLDRLNGDVYIDALYSLFIFK
EDGGVRPMIHALKYGGYSEIGEMLGRMAGRSYPFLSKDYDLIVPVPLHPRKQRKRGYNQALLIAQGLSRVTGIPVQEGLR
RKVYTDSQTGQSYSERKSAMKGKFALSPNTRVAGIRVLLVDDVLTTGATVQAAAEPLAEAFAAKIGVLVAAVTKRPSNWS
HYSDER

Nucleotide


Download         Length: 741 bp        

>NTDB_id=1423 PG_RS00735 WP_005875257.1 180315..181055(+) (comF) [Porphyromonas gingivalis W83]
ATGAGGAAGACAGCTAACGGTACGGGCCGGCATATCCGATTGCTGATTCGTAAGGTGTTGGATCTGTTTTTCCCTCGCTA
TTGTCCTGTATGCGACAGCTTGCTCGCCGAGACGGAGATCGGGGTCTGTCCTCGTTGCATGGTGAGAATGCCACGGTATA
TCGAAGGGATGCAATATGGATTAGATCGTCTGAATGGGGATGTTTATATCGACGCGCTGTACAGCCTTTTTATTTTCAAA
GAGGACGGGGGTGTAAGGCCTATGATACACGCACTAAAATATGGAGGATACAGTGAGATCGGCGAAATGCTCGGACGAAT
GGCCGGCCGATCCTATCCTTTCCTGTCCAAGGATTACGATCTGATAGTGCCGGTTCCTTTACACCCACGCAAACAACGTA
AGCGTGGCTACAATCAGGCACTCCTCATCGCACAAGGATTAAGTCGCGTAACGGGAATACCTGTTCAAGAAGGTTTGCGC
AGAAAGGTATATACGGACAGTCAGACCGGACAGTCCTATTCGGAACGAAAGTCAGCCATGAAAGGGAAGTTTGCCCTCTC
CCCGAATACGCGCGTGGCCGGTATCCGTGTTCTTTTGGTGGACGATGTGCTGACTACCGGGGCTACGGTACAAGCTGCGG
CCGAGCCATTGGCAGAAGCCTTTGCGGCCAAGATCGGTGTATTGGTGGCAGCCGTTACCAAGCGTCCCTCGAATTGGTCT
CATTATTCTGATGAGCGATAG

Domains

Predicted by InterproScan.

Phosphoribosyl transferase domain (Pribosyltran)

(140-236)


Secondary structure

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



3D structure

Source ID Structure
  AlphaFold DB A0A0E2LU95

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

References

[1] Gena D Tribble et al. (2012) Natural competence is a major mechanism for horizontal DNA transfer in the oral pathogen Porphyromonas gingivalis. MBio 3(1):e00231-11. [PMID: 22294679]