Detailed information    

insolico Bioinformatically predicted

Overview

Name   rpoN/rpoN1   Type   Machinery gene
Locus tag   EJD96_RS19905 Genome accession   NZ_CP034395
Coordinates   4429362..4430852 (+) Length   496 a.a.
NCBI ID   WP_013235904.1    Uniprot ID   D8ISM8
Organism   Herbaspirillum seropedicae strain AU13965     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 4424362..4435852
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  EJD96_RS19880 (EJD96_19880) - 4425682..4426710 (+) 1029 WP_013235899.1 KpsF/GutQ family sugar-phosphate isomerase -
  EJD96_RS19885 (EJD96_19885) - 4426710..4427264 (+) 555 WP_139972106.1 KdsC family phosphatase -
  EJD96_RS19890 (EJD96_19890) lptC 4427261..4427869 (+) 609 WP_069374892.1 LPS export ABC transporter periplasmic protein LptC -
  EJD96_RS19895 (EJD96_19895) lptA 4427939..4428544 (+) 606 WP_013235902.1 lipopolysaccharide transport periplasmic protein LptA -
  EJD96_RS19900 (EJD96_19900) lptB 4428546..4429289 (+) 744 WP_013235903.1 LPS export ABC transporter ATP-binding protein -
  EJD96_RS19905 (EJD96_19905) rpoN/rpoN1 4429362..4430852 (+) 1491 WP_013235904.1 RNA polymerase factor sigma-54 Machinery gene
  EJD96_RS19910 (EJD96_19910) hpf 4431006..4431368 (+) 363 WP_048348626.1 ribosome hibernation-promoting factor, HPF/YfiA family -
  EJD96_RS19915 (EJD96_19915) grxD 4431699..4432010 (+) 312 WP_013235906.1 Grx4 family monothiol glutaredoxin -
  EJD96_RS19920 (EJD96_19920) - 4432034..4432636 (+) 603 WP_139972107.1 UbiX family flavin prenyltransferase -
  EJD96_RS19925 (EJD96_19925) - 4432651..4433049 (+) 399 WP_244940086.1 helix-turn-helix domain-containing protein -
  EJD96_RS19930 (EJD96_19930) - 4433133..4433900 (-) 768 WP_139972109.1 SDR family oxidoreductase -

Sequence

Protein


Download         Length: 496 a.a.        Molecular weight: 55041.55 Da        Isoelectric Point: 5.0478

>NTDB_id=331082 EJD96_RS19905 WP_013235904.1 4429362..4430852(+) (rpoN/rpoN1) [Herbaspirillum seropedicae strain AU13965]
MKQSLQLRTSQHLALTPQLQQSIRLLQLSTLELHQELEQILTDNPLLERLDDALDNSVRLLADGAVSAAPSSGVSETTGS
EASSEAAPAAADGESSFEYQDTAPEGVSGDSDWSFDDVARSGKSPDDEDARPQLEAHEITLREHLLEQIRVTARTQRDRA
LLELLTDALDDSGYLEEPLEDILARLPEELGVDLEELSISLKLLQSLDPAGVGARSAGECLALQIRRLPKVPFVTRRLAL
KIVEDYLPLFAQRDFNKIKKALDCDDEDLREAQAVIRQCRPHPGAEFARDASDYVVPDVIVKQTKNGWQVMLNHEVMPKL
RVNAMYASALKQAKGEGSLSSQLQEAKWLIKNMRQRFDTILRVAQAIVERQRNFFSHGAVAMRPLVLREIADTLGLHEST
ISRVTTQKYMLTPHGMFELKYFFGSHVATETGGEASSTAIRALIKQLIGAENPQTPLSDSKIADMLAEQGMVVARRTVAK
YREVLKIPPVNLRKSL

Nucleotide


Download         Length: 1491 bp        

>NTDB_id=331082 EJD96_RS19905 WP_013235904.1 4429362..4430852(+) (rpoN/rpoN1) [Herbaspirillum seropedicae strain AU13965]
ATGAAACAGTCGCTCCAGTTACGTACCTCGCAGCATCTCGCATTGACGCCGCAATTGCAGCAGTCGATCAGACTGCTGCA
ACTGTCGACGCTGGAATTGCATCAGGAGCTGGAGCAGATACTGACCGACAATCCCCTACTGGAACGCCTCGACGACGCGC
TCGACAATTCGGTGCGCCTGCTGGCCGATGGCGCCGTCTCGGCGGCCCCCTCGAGCGGCGTGAGCGAGACCACCGGCAGT
GAGGCCAGCAGCGAAGCCGCGCCCGCAGCGGCCGATGGCGAATCCAGTTTCGAGTACCAGGACACCGCCCCCGAGGGCGT
GAGCGGCGACTCCGACTGGAGCTTCGACGATGTGGCCCGCAGCGGCAAGTCGCCCGATGACGAAGACGCCCGCCCCCAGC
TGGAAGCCCACGAGATCACCCTGCGCGAACATCTGCTGGAGCAGATCCGCGTGACGGCGCGCACGCAGCGCGACCGCGCC
CTGCTGGAACTGCTCACCGATGCGCTGGACGACAGCGGCTATCTGGAAGAGCCGCTGGAAGACATCCTCGCGCGCCTGCC
CGAAGAGTTGGGCGTGGACCTGGAAGAGCTCTCCATTTCGCTGAAGCTGCTGCAAAGCCTGGACCCGGCGGGCGTGGGTG
CGCGCAGCGCTGGCGAATGCCTGGCCCTGCAGATCCGCCGCCTGCCCAAGGTGCCCTTCGTCACGCGCCGGCTGGCGCTG
AAGATCGTGGAAGATTACCTGCCGCTGTTTGCGCAGCGCGACTTCAACAAGATCAAGAAGGCGCTCGATTGCGATGACGA
AGACCTGCGTGAAGCGCAGGCCGTGATCCGCCAGTGCCGTCCGCACCCCGGCGCGGAATTCGCCCGCGATGCCTCGGACT
ATGTCGTGCCGGACGTGATTGTCAAACAGACAAAGAACGGCTGGCAGGTCATGCTCAACCATGAGGTCATGCCCAAGCTG
CGCGTCAACGCCATGTATGCCAGCGCGCTCAAGCAGGCCAAGGGCGAGGGCTCGCTGTCCTCGCAGTTGCAGGAAGCCAA
GTGGCTCATCAAGAACATGCGGCAACGTTTCGATACAATTCTGCGCGTCGCGCAGGCCATTGTGGAACGTCAAAGAAACT
TCTTTTCACATGGGGCAGTCGCCATGCGCCCCCTTGTGCTGCGTGAAATTGCTGATACACTGGGTCTACACGAGAGCACT
ATCTCTCGCGTGACAACTCAGAAATACATGCTCACACCGCATGGCATGTTTGAGTTGAAGTACTTCTTCGGTAGCCACGT
CGCAACTGAAACCGGAGGCGAAGCTTCCTCCACCGCGATACGGGCGCTGATCAAACAGTTGATAGGAGCCGAAAACCCGC
AGACCCCATTATCCGATAGCAAGATTGCGGATATGCTGGCAGAACAAGGCATGGTGGTCGCGCGACGCACAGTCGCCAAA
TACCGCGAAGTGTTGAAGATTCCGCCAGTCAATCTCCGCAAGTCCCTCTGA

Domains

Predicted by InterProScan.

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

(4-48)

Sigma-54 factor, core binding domain (Sigma54_CBD)

(134-326)

Sigma-54, DNA binding domain (Sigma54_DBD)

(339-494)


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
  rpoN/rpoN1 Ralstonia pseudosolanacearum GMI1000

59.921

100

0.615

Multiple sequence alignment