Detailed information    

insolico Bioinformatically predicted

Overview

Name   rpoN/rpoN1   Type   Machinery gene
Locus tag   ACODN6_RS13705 Genome accession   NZ_CP184643
Coordinates   2956935..2958404 (+) Length   489 a.a.
NCBI ID   WP_005281701.1    Uniprot ID   D4F169
Organism   Edwardsiella tarda strain YX2306     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 2951935..2963404
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  ACODN6_RS13675 (ACODN6_13675) - 2952365..2953354 (+) 990 WP_005281708.1 calcium/sodium antiporter -
  ACODN6_RS13680 (ACODN6_13680) kdsD 2953407..2954393 (+) 987 WP_047060479.1 arabinose-5-phosphate isomerase KdsD -
  ACODN6_RS13685 (ACODN6_13685) kdsC 2954409..2954975 (+) 567 WP_005297337.1 3-deoxy-manno-octulosonate-8-phosphatase KdsC -
  ACODN6_RS13690 (ACODN6_13690) lptC 2954972..2955544 (+) 573 WP_005281705.1 LPS export ABC transporter periplasmic protein LptC -
  ACODN6_RS13695 (ACODN6_13695) lptA 2955519..2956076 (+) 558 WP_005281704.1 lipopolysaccharide ABC transporter substrate-binding protein LptA -
  ACODN6_RS13700 (ACODN6_13700) lptB 2956083..2956808 (+) 726 WP_005281703.1 LPS export ABC transporter ATP-binding protein -
  ACODN6_RS13705 (ACODN6_13705) rpoN/rpoN1 2956935..2958404 (+) 1470 WP_005281701.1 RNA polymerase factor sigma-54 Machinery gene
  ACODN6_RS13710 (ACODN6_13710) hpf 2958426..2958713 (+) 288 WP_024524583.1 ribosome hibernation promoting factor -
  ACODN6_RS13715 (ACODN6_13715) ptsN 2958849..2959295 (+) 447 WP_005297331.1 PTS IIA-like nitrogen regulatory protein PtsN -
  ACODN6_RS13720 (ACODN6_13720) rapZ 2959403..2960254 (+) 852 WP_005281696.1 RNase adapter RapZ -
  ACODN6_RS13725 (ACODN6_13725) npr 2960262..2960534 (+) 273 WP_005281695.1 PTS phosphocarrier protein NPr -
  ACODN6_RS13730 (ACODN6_13730) rnk 2960711..2961121 (+) 411 WP_068871249.1 nucleoside diphosphate kinase regulator -
  ACODN6_RS13735 (ACODN6_13735) - 2961152..2961667 (-) 516 WP_370554619.1 cytochrome b/b6 domain-containing protein -
  ACODN6_RS13740 (ACODN6_13740) cybC 2961673..2962059 (-) 387 WP_005291336.1 cytochrome b562 -
  ACODN6_RS13745 (ACODN6_13745) deoD 2962273..2962998 (-) 726 WP_005281692.1 purine-nucleoside phosphorylase -

Sequence

Protein


Download         Length: 489 a.a.        Molecular weight: 55075.91 Da        Isoelectric Point: 4.4068

>NTDB_id=1110450 ACODN6_RS13705 WP_005281701.1 2956935..2958404(+) (rpoN/rpoN1) [Edwardsiella tarda strain YX2306]
MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQEIQQALESNPLLEQLDPNEEAGDDGVVRENTQEDVVTRDDADPLD
SREALEQREMPDELPLDASWDEIYTAGTPSGTGTDYHDDELPVFQGETTQTLQDYLMWQVELTPFSDTDLAIATAIVDAV
DDTGYLSASLEEILESLGDDRVLPEEIEAVLKRIQRFDPVGVAARDLRDCLLVQLSQFADDTPYLNEARSIVDRHLDLLG
NHDFRNLMRSTKLKEEVLKAAMQLIQSLDPRPGLSINTGESDYVIPDVLVHKHQERWVVELNQDSVPRLRINQHYAALGT
QARNDSDSQFIRSNLQEAKWLIKSLESRNDTLLKVSRCIVEQQQAFFEHGPEAMKPMVLADIAQQVEMHESTISRVTTQK
FLHSPRGIFELKYFFSSHVSTEDGGEASSTAIRALVKKLIAAENPAKPLSDSKLTTLLADQGIMVARRTVAKYRESLSIP
PSNQRKQLV

Nucleotide


Download         Length: 1470 bp        

>NTDB_id=1110450 ACODN6_RS13705 WP_005281701.1 2956935..2958404(+) (rpoN/rpoN1) [Edwardsiella tarda strain YX2306]
ATGAAGCAAGGCTTGCAACTCAGACTCAGCCAGCAGCTGGCCATGACGCCCCAACTGCAACAGGCCATTCGCCTGTTGCA
GCTCTCGACGCTGGAGTTACAGCAAGAGATCCAGCAGGCGTTGGAAAGCAATCCTCTGCTGGAACAACTGGATCCCAATG
AGGAAGCCGGCGACGACGGCGTCGTTCGCGAGAATACACAGGAGGATGTCGTCACACGCGATGATGCCGATCCACTGGAT
AGCCGCGAGGCGTTGGAGCAACGTGAGATGCCGGACGAGCTGCCGCTGGATGCCAGCTGGGACGAGATCTATACCGCTGG
CACCCCCTCAGGCACGGGAACGGATTATCATGACGACGAGTTACCCGTGTTTCAGGGAGAGACGACCCAAACGCTGCAGG
ACTATCTGATGTGGCAGGTCGAACTGACCCCCTTCAGTGATACCGATCTGGCCATCGCTACCGCCATCGTCGATGCCGTC
GACGATACCGGCTATCTCAGCGCTTCGTTGGAGGAGATCCTCGAGAGTCTAGGGGACGATCGCGTCCTACCGGAAGAGAT
CGAGGCCGTCCTCAAGCGCATCCAACGTTTTGATCCGGTCGGTGTCGCCGCGCGTGATCTGCGCGACTGCCTACTGGTCC
AGCTCTCGCAATTCGCCGACGACACGCCCTATCTCAACGAGGCTCGTAGCATCGTCGATCGCCACCTCGATCTGTTGGGT
AATCACGATTTCCGAAATCTGATGCGTTCGACTAAGCTAAAAGAAGAGGTGCTCAAGGCGGCGATGCAACTGATCCAGAG
CCTCGACCCGCGGCCAGGACTCTCCATCAACACCGGCGAGTCTGACTACGTCATCCCCGACGTGCTGGTGCATAAACATC
AGGAGCGCTGGGTGGTTGAGCTCAATCAGGACAGCGTCCCGCGCCTGCGTATCAACCAACATTACGCCGCGCTGGGCACT
CAGGCGCGTAACGACAGCGACAGCCAGTTCATTCGCAGCAATCTGCAAGAAGCGAAGTGGCTGATCAAGAGCCTAGAGAG
CCGTAACGATACCCTGCTGAAGGTATCGCGTTGCATCGTAGAGCAGCAGCAAGCGTTCTTCGAGCACGGGCCGGAGGCGA
TGAAGCCGATGGTACTGGCTGATATCGCTCAGCAAGTCGAAATGCACGAATCGACGATCTCACGTGTGACTACGCAGAAG
TTTCTGCACAGCCCGCGTGGAATCTTTGAACTGAAATATTTCTTCTCCAGCCATGTCAGCACCGAGGACGGCGGCGAGGC
CTCCTCCACGGCCATCCGGGCGCTGGTGAAGAAACTGATCGCGGCAGAAAATCCGGCGAAACCGCTGAGTGATAGCAAAC
TTACCACTCTATTGGCGGATCAGGGTATCATGGTCGCCCGGCGTACTGTCGCAAAATACCGAGAGTCTTTGTCCATTCCA
CCGTCCAATCAGCGTAAACAGCTGGTGTGA

Domains

Predicted by InterproScan.

Sigma-54, DNA binding domain (Sigma54_DBD)

(329-487)

Sigma-54 factor, core binding domain (Sigma54_CBD)

(128-315)

Sigma-54 factor, Activator interacting domain (AID) (Sigma54_AID)

(5-48)


Secondary structure

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



3D structure

Source ID Structure
  AlphaFold DB D4F169

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
  rpoN/rpoN1 Ralstonia pseudosolanacearum GMI1000

45.367

100

0.481

Multiple sequence alignment