Detailed information    

experimental Experimentally validated

Overview

Name   comF   Type   Machinery gene
Locus tag   RA0C_RS05105 Genome accession   NC_017045
Coordinates   1060844..1061497 (-) Length   217 a.a.
NCBI ID   WP_004918078.1    Uniprot ID   A0AAP6LJM8
Organism   Riemerella anatipestifer ATCC 11845 = DSM 15868     
Function   ssDNA transport into the cell   
DNA binding and uptake

Function

Among these genes, RA0C_RS04895, RA0C_RS05130, RA0C_RS09020, RA0C_RS02645, RA0C_RS04870, RA0C_RS05105, RA0C_RS04915, and RA0C_RS04920 were shown to be essential for natural transformation occurrence.


Genomic Context

Location: 1055844..1066497
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  RA0C_RS05090 (RA0C_1064) - 1056664..1057746 (-) 1083 WP_004918073.1 serine hydrolase domain-containing protein -
  RA0C_RS05095 (RA0C_1065) - 1057857..1059512 (-) 1656 WP_004918074.1 ribonucleoside-diphosphate reductase subunit alpha -
  RA0C_RS05100 (RA0C_1066) - 1059560..1060534 (-) 975 WP_004918076.1 ribonucleotide-diphosphate reductase subunit beta -
  RA0C_RS10465 (RA0C_1067) - 1060616..1060756 (+) 141 WP_015345427.1 hypothetical protein -
  RA0C_RS05105 (RA0C_1068) comF 1060844..1061497 (-) 654 WP_004918078.1 ComF family protein Machinery gene
  RA0C_RS05115 (RA0C_1070) - 1061719..1062270 (-) 552 WP_004918080.1 hypothetical protein -
  RA0C_RS05120 (RA0C_1071) - 1062325..1062975 (-) 651 WP_004918082.1 HD domain-containing protein -
  RA0C_RS05125 (RA0C_1072) gdhA 1063107..1064465 (-) 1359 WP_014938006.1 NADP-specific glutamate dehydrogenase -
  RA0C_RS05130 (RA0C_1073) dprA 1064649..1065752 (-) 1104 WP_004918085.1 DNA-processing protein DprA Machinery gene
  RA0C_RS05135 (RA0C_1074) - 1065755..1066132 (-) 378 WP_004918086.1 group III truncated hemoglobin -

Sequence

Protein


Download         Length: 217 a.a.        Molecular weight: 25339.46 Da        Isoelectric Point: 9.4150

>NTDB_id=1333 RA0C_RS05105 WP_004918078.1 1060844..1061497(-) (comF) [Riemerella anatipestifer ATCC 11845 = DSM 15868]
MFLDFFLPNRCLKCNLIISSDEIVCWACKSHINFTYNDFGGKGDFYQKVVLKFPVNKAFSLMKYEKKELSQDIIHALKYH
SMERVGKVLAHWVSENMDLSHQGIDILTNIPLHPKKQRERGYNQLHLFTKTLSQLQRIPYSHYLLKRNFYSKPQALKQKL
DREKMQNIFSVDEKIEGKHILLIDDVYTTGNTMSKAVWELLKGNGNQVSVLVLAIDE

Nucleotide


Download         Length: 654 bp        

>NTDB_id=1333 RA0C_RS05105 WP_004918078.1 1060844..1061497(-) (comF) [Riemerella anatipestifer ATCC 11845 = DSM 15868]
ATGTTTTTAGATTTTTTTCTGCCCAATAGATGCCTAAAGTGTAATCTCATTATTTCCTCTGATGAAATCGTTTGCTGGGC
GTGTAAGTCTCATATCAATTTTACCTACAATGATTTTGGAGGAAAAGGGGATTTTTATCAAAAAGTTGTTCTTAAATTTC
CAGTAAATAAGGCTTTTAGTTTGATGAAGTACGAGAAAAAAGAACTTTCTCAAGATATTATACACGCCTTAAAGTACCAT
TCTATGGAGCGTGTGGGTAAGGTGTTAGCTCATTGGGTTTCTGAAAATATGGATTTATCTCATCAAGGGATAGATATATT
AACTAATATTCCACTTCATCCTAAAAAACAAAGAGAGAGAGGGTATAATCAGTTGCATTTATTTACAAAAACATTATCTC
AGTTGCAGAGGATACCTTATTCTCATTATCTTCTTAAAAGAAATTTCTATTCTAAGCCTCAAGCCTTAAAGCAAAAATTG
GATAGAGAAAAGATGCAAAATATATTTTCTGTAGATGAGAAAATAGAAGGTAAACACATCTTACTTATAGACGATGTATA
TACCACAGGAAATACAATGAGTAAAGCGGTTTGGGAGCTTTTAAAAGGAAATGGGAATCAGGTGAGTGTTTTGGTTTTGG
CAATAGATGAATAA

Domains

Predicted by InterproScan.

Phosphoribosyl transferase domain (Pribosyltran)

(163-212)


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

References

[1] Li Huang et al. (2021) Identification of the Natural Transformation Genes in Riemerella anatipestifer by Random Transposon Mutagenesis. Frontiers in Microbiology 12:712198. [PMID: 34566918]