Detailed information    

experimental Experimentally validated

Overview

Name   comEC   Type   Machinery gene
Locus tag   RA0C_RS04895 Genome accession   NC_017045
Coordinates   1010404..1012173 (-) Length   589 a.a.
NCBI ID   WP_228481890.1    Uniprot ID   -
Organism   Riemerella anatipestifer ATCC 11845 = DSM 15868     
Function   ssDNA transport through the inner membrane   
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: 1005404..1017173
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  RA0C_RS04875 (RA0C_1020) dinB 1005572..1006654 (-) 1083 WP_013446916.1 DNA polymerase IV -
  RA0C_RS04880 (RA0C_1021) - 1006740..1007510 (-) 771 WP_004918231.1 succinate dehydrogenase/fumarate reductase iron-sulfur subunit -
  RA0C_RS04885 (RA0C_1022) - 1007534..1009546 (-) 2013 WP_013446917.1 fumarate reductase/succinate dehydrogenase flavoprotein subunit -
  RA0C_RS04890 (RA0C_1023) - 1009611..1010279 (-) 669 WP_013446918.1 succinate dehydrogenase cytochrome b subunit -
  RA0C_RS04895 (RA0C_1024) comEC 1010404..1012173 (-) 1770 WP_228481890.1 ComEC/Rec2 family competence protein Machinery gene
  RA0C_RS04900 (RA0C_1025) - 1012262..1012699 (-) 438 WP_004918223.1 hypothetical protein -
  RA0C_RS04905 (RA0C_1026) - 1012699..1014327 (-) 1629 WP_004918222.1 acyl-CoA carboxylase subunit beta -
  RA0C_RS04910 (RA0C_1027) - 1014432..1015625 (-) 1194 WP_004918219.1 endonuclease/exonuclease/phosphatase family protein -

Sequence

Protein


Download         Length: 589 a.a.        Molecular weight: 69047.68 Da        Isoelectric Point: 10.1105

>NTDB_id=1320 RA0C_RS04895 WP_228481890.1 1010404..1012173(-) (comEC) [Riemerella anatipestifer ATCC 11845 = DSM 15868]
MKKQILFSLFISFSLGVFLQDLNGFSWQNLNIIAILGVISLGLIWVKADWVVRIRIWLLNIFFLCFGVFTHYLNSEKSVL
PSVSKKEELVFKIEQKLNSTAKNKRYEITAFHQNQPFKAVLSVPKDLEELDYKHYYQSQLSLYPLESSKNNYQFDYAKFQ
ARKGVYYRAYARDLRKAPKSELTFSEKMKRWRLEFLSNIDKNEKLSQQTRAFLKGIVLADRTEVDAGTNSNFRRSGLAHI
LAISGTHIAIIFGVVYMLLRLVLPVRFRIGVMLLSLSLIWAFAWFIGWGNSVVRACIMLTVYFGFVLLQRKPQVLDSLAL
AGLGILMVDTQELFSVGFQLSFSAVLGIYWFNRPMIRLFPNPRNKIQKLLLYTFTMSTAAQLGTMPIVIYYFHQYSAWSI
LANLVVLPLMEIVIILSFLMTIVFGLGIYWNWLSFTYDWLIKALLWLIGFFGKIEMGYFQDIPLSIWEMGVWAVGLYFLR
EILIRFTWRGFMRLMFSVLLFFGIKMWLDIRAYHDKEAKWHYHYRTKVFSVLDKGKVCFWVADEDNLETLESNLIKPYVI
SKRAESYKVKMMSKEVDEVIFNGKRYLFQ

Nucleotide


Download         Length: 1770 bp        

>NTDB_id=1320 RA0C_RS04895 WP_228481890.1 1010404..1012173(-) (comEC) [Riemerella anatipestifer ATCC 11845 = DSM 15868]
GTGAAAAAGCAAATTCTTTTTAGTCTGTTTATAAGTTTTTCATTAGGTGTCTTTTTGCAAGACCTTAATGGGTTCTCGTG
GCAAAATCTCAATATTATAGCTATATTGGGGGTTATTAGTCTTGGGTTAATTTGGGTGAAAGCAGATTGGGTAGTTCGAA
TTAGAATTTGGTTACTCAATATCTTTTTTCTCTGTTTTGGAGTATTTACTCATTACCTTAATTCGGAAAAATCAGTTTTG
CCGAGTGTTTCTAAAAAGGAAGAGCTTGTTTTTAAAATTGAGCAAAAGCTGAATTCAACGGCTAAAAACAAACGCTATGA
AATAACAGCATTTCATCAAAATCAACCTTTTAAAGCAGTTTTATCTGTTCCAAAAGATTTGGAAGAATTGGATTATAAGC
ACTACTATCAGTCTCAACTAAGTCTATATCCGTTGGAGTCTTCCAAGAATAATTACCAGTTTGATTATGCCAAATTTCAA
GCAAGGAAAGGCGTATATTATAGAGCCTATGCCAGAGATTTACGCAAAGCTCCAAAATCAGAGCTTACTTTCTCCGAAAA
AATGAAACGATGGCGATTGGAATTCCTTAGTAATATAGATAAAAACGAAAAACTTTCACAGCAAACTAGAGCTTTCCTAA
AAGGAATTGTATTAGCCGATAGAACAGAGGTAGATGCAGGCACTAATTCCAATTTTAGGCGAAGTGGCTTGGCACATATT
TTGGCTATTTCGGGGACGCACATAGCAATTATATTCGGAGTGGTCTATATGCTGTTGAGGTTAGTGTTGCCTGTTAGATT
TCGGATTGGTGTAATGTTACTTAGTTTGTCGTTAATTTGGGCTTTTGCTTGGTTTATTGGTTGGGGAAATTCTGTTGTTA
GAGCCTGTATTATGCTTACGGTTTATTTTGGTTTTGTCCTTCTGCAAAGGAAACCGCAAGTTTTGGATTCTTTAGCCTTG
GCAGGATTAGGGATTTTGATGGTGGATACACAAGAGTTGTTTTCGGTGGGATTTCAATTGAGTTTTTCGGCAGTATTGGG
AATTTATTGGTTTAATAGACCTATGATTCGTCTTTTTCCAAATCCTAGAAACAAAATTCAAAAACTATTGCTTTACACCT
TCACGATGTCCACGGCGGCACAGCTTGGGACTATGCCTATTGTGATTTATTATTTCCACCAGTATTCAGCGTGGTCTATT
TTGGCTAATCTTGTAGTACTTCCTTTAATGGAAATTGTGATTATACTATCGTTTTTAATGACGATTGTTTTTGGTTTAGG
GATTTATTGGAATTGGCTATCTTTTACTTATGATTGGTTAATTAAAGCGTTGCTATGGCTGATAGGTTTCTTTGGTAAAA
TAGAGATGGGGTATTTTCAAGACATACCGTTGAGTATTTGGGAGATGGGTGTTTGGGCGGTAGGGCTTTATTTTCTAAGA
GAAATATTGATTCGTTTTACATGGAGAGGTTTTATGAGGTTGATGTTTTCTGTGCTTTTATTTTTCGGGATTAAAATGTG
GCTAGATATCAGAGCTTATCACGATAAAGAAGCAAAGTGGCATTACCATTATCGTACTAAAGTGTTCTCTGTTTTGGATA
AAGGTAAGGTGTGCTTTTGGGTGGCGGATGAAGATAATTTAGAAACGTTAGAAAGTAATCTCATAAAACCTTATGTAATT
TCTAAAAGAGCTGAAAGCTATAAAGTAAAAATGATGTCTAAAGAAGTAGATGAGGTTATTTTTAATGGAAAAAGGTATTT
GTTTCAATAA

Domains

Predicted by InterproScan.

Domain of unknown function (DUF4131) (DUF4131)

(29-173)

Competence protein (Competence)

(216-479)


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]