Detailed information    

insolico Bioinformatically predicted

Overview

Name   rpoN/rpoN1   Type   Machinery gene
Locus tag   GBS0709_RS13960 Genome accession   NZ_AP028090
Coordinates   3028795..3030264 (+) Length   489 a.a.
NCBI ID   WP_005281701.1    Uniprot ID   D4F169
Organism   Edwardsiella tarda strain GBS0709     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 3023795..3035264
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  GBS0709_RS13930 (GBS0709_27680) - 3024225..3025214 (+) 990 WP_005281708.1 calcium/sodium antiporter -
  GBS0709_RS13935 (GBS0709_27690) kdsD 3025267..3026253 (+) 987 WP_005281707.1 arabinose-5-phosphate isomerase KdsD -
  GBS0709_RS13940 (GBS0709_27700) kdsC 3026269..3026835 (+) 567 WP_005297337.1 3-deoxy-manno-octulosonate-8-phosphatase KdsC -
  GBS0709_RS13945 (GBS0709_27710) lptC 3026832..3027404 (+) 573 WP_005281705.1 LPS export ABC transporter periplasmic protein LptC -
  GBS0709_RS13950 (GBS0709_27720) lptA 3027379..3027936 (+) 558 WP_337977516.1 lipopolysaccharide ABC transporter substrate-binding protein LptA -
  GBS0709_RS13955 (GBS0709_27730) lptB 3027943..3028668 (+) 726 WP_005281703.1 LPS export ABC transporter ATP-binding protein -
  GBS0709_RS13960 (GBS0709_27740) rpoN/rpoN1 3028795..3030264 (+) 1470 WP_005281701.1 RNA polymerase factor sigma-54 Machinery gene
  GBS0709_RS13965 (GBS0709_27750) hpf 3030286..3030573 (+) 288 WP_024524583.1 ribosome hibernation promoting factor -
  GBS0709_RS13970 (GBS0709_27760) ptsN 3030708..3031154 (+) 447 WP_005297331.1 PTS IIA-like nitrogen regulatory protein PtsN -
  GBS0709_RS13975 (GBS0709_27770) rapZ 3031262..3032113 (+) 852 WP_005281696.1 RNase adapter RapZ -
  GBS0709_RS13980 (GBS0709_27780) npr 3032121..3032393 (+) 273 WP_005281695.1 PTS phosphocarrier protein NPr -
  GBS0709_RS13985 (GBS0709_27790) rnk 3032570..3032980 (+) 411 WP_035597411.1 nucleoside diphosphate kinase regulator -
  GBS0709_RS13990 (GBS0709_27800) - 3033011..3033526 (-) 516 WP_068871247.1 cytochrome b/b6 domain-containing protein -
  GBS0709_RS13995 (GBS0709_27810) cybC 3033532..3033918 (-) 387 WP_337977517.1 cytochrome b562 -
  GBS0709_RS14000 (GBS0709_27820) deoD 3034132..3034857 (-) 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=103723 GBS0709_RS13960 WP_005281701.1 3028795..3030264(+) (rpoN/rpoN1) [Edwardsiella tarda strain GBS0709]
MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQEIQQALESNPLLEQLDPNEEAGDDGVVRENTQEDVVTRDDADPLD
SREALEQREMPDELPLDASWDEIYTAGTPSGTGTDYHDDELPVFQGETTQTLQDYLMWQVELTPFSDTDLAIATAIVDAV
DDTGYLSASLEEILESLGDDRVLPEEIEAVLKRIQRFDPVGVAARDLRDCLLVQLSQFADDTPYLNEARSIVDRHLDLLG
NHDFRNLMRSTKLKEEVLKAAMQLIQSLDPRPGLSINTGESDYVIPDVLVHKHQERWVVELNQDSVPRLRINQHYAALGT
QARNDSDSQFIRSNLQEAKWLIKSLESRNDTLLKVSRCIVEQQQAFFEHGPEAMKPMVLADIAQQVEMHESTISRVTTQK
FLHSPRGIFELKYFFSSHVSTEDGGEASSTAIRALVKKLIAAENPAKPLSDSKLTTLLADQGIMVARRTVAKYRESLSIP
PSNQRKQLV

Nucleotide


Download         Length: 1470 bp        

>NTDB_id=103723 GBS0709_RS13960 WP_005281701.1 3028795..3030264(+) (rpoN/rpoN1) [Edwardsiella tarda strain GBS0709]
ATGAAGCAAGGCTTGCAACTCAGACTCAGCCAGCAGTTGGCCATGACGCCCCAACTGCAACAGGCCATTCGCCTGTTGCA
GCTCTCGACGCTGGAGTTACAGCAAGAGATCCAGCAGGCGTTGGAAAGCAATCCTCTGCTGGAACAACTGGATCCCAATG
AGGAAGCCGGCGACGACGGCGTCGTTCGCGAGAATACACAGGAGGATGTCGTCACACGCGATGATGCCGATCCACTGGAT
AGCCGCGAGGCGTTGGAGCAACGTGAGATGCCGGACGAGCTGCCGCTGGATGCCAGCTGGGACGAGATCTATACCGCTGG
CACCCCCTCAGGCACGGGAACGGATTATCATGACGACGAGTTACCCGTGTTTCAGGGAGAGACGACCCAAACGCTGCAGG
ACTATCTGATGTGGCAGGTCGAACTGACCCCCTTCAGTGATACCGATCTGGCCATCGCTACCGCCATCGTCGATGCCGTC
GACGATACCGGCTATCTCAGCGCCTCGTTGGAGGAGATCCTCGAGAGTCTAGGGGACGATCGCGTCCTACCGGAAGAGAT
CGAGGCCGTCCTCAAGCGCATCCAACGTTTTGATCCGGTCGGTGTCGCCGCGCGTGATCTGCGCGACTGCCTACTGGTCC
AGCTCTCGCAATTCGCCGACGACACGCCCTATCTCAACGAGGCTCGTAGCATCGTCGATCGCCACCTCGATCTGTTGGGT
AATCACGATTTCCGAAATCTGATGCGTTCGACTAAGCTAAAAGAAGAGGTGCTCAAGGCGGCGATGCAACTGATCCAGAG
CCTCGACCCGCGGCCAGGACTCTCCATCAATACCGGCGAGTCTGACTATGTCATCCCCGACGTGCTGGTGCATAAACATC
AGGAACGCTGGGTGGTTGAGCTCAATCAGGACAGCGTCCCGCGCCTGCGTATCAATCAACATTACGCCGCGCTGGGCACT
CAGGCGCGTAACGATAGCGACAGCCAGTTCATTCGTAGCAATCTGCAAGAAGCGAAGTGGCTGATCAAGAGCCTAGAGAG
CCGTAACGATACCCTGCTGAAGGTATCGCGTTGCATCGTAGAGCAGCAGCAAGCGTTCTTCGAGCACGGGCCGGAGGCGA
TGAAGCCGATGGTGCTGGCAGATATCGCTCAGCAAGTCGAAATGCACGAGTCGACGATCTCACGCGTGACTACGCAGAAG
TTTCTGCACAGCCCGCGCGGAATCTTTGAACTGAAATATTTCTTCTCCAGCCATGTCAGCACCGAGGACGGCGGCGAGGC
CTCCTCCACTGCCATCCGGGCGCTGGTGAAGAAACTGATCGCGGCAGAAAATCCGGCGAAGCCGCTGAGTGATAGCAAAC
TTACCACTCTATTGGCAGATCAGGGTATCATGGTCGCCCGGCGTACTGTCGCAAAATACCGAGAGTCTTTGTCCATTCCA
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