Detailed information    

insolico Bioinformatically predicted

Overview

Name   rpoN/rpoN1   Type   Machinery gene
Locus tag   NWF24_RS29140 Genome accession   NZ_CP102931
Coordinates   6218199..6219800 (-) Length   533 a.a.
NCBI ID   WP_093054107.1    Uniprot ID   -
Organism   Variovorax paradoxus strain JBCE486     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 6213199..6224800
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  NWF24_RS29115 (NWF24_29115) - 6214023..6214616 (+) 594 WP_258351561.1 cytochrome b -
  NWF24_RS29120 (NWF24_29120) - 6214616..6215203 (+) 588 WP_258355377.1 YceI family protein -
  NWF24_RS29125 (NWF24_29125) - 6215268..6215909 (+) 642 WP_258351562.1 YceI family protein -
  NWF24_RS29130 (NWF24_29130) - 6215929..6216573 (+) 645 WP_258351563.1 LysE family translocator -
  NWF24_RS29135 (NWF24_29135) - 6216581..6218188 (-) 1608 WP_258351564.1 phospholipase D family protein -
  NWF24_RS29140 (NWF24_29140) rpoN/rpoN1 6218199..6219800 (-) 1602 WP_093054107.1 RNA polymerase factor sigma-54 Machinery gene
  NWF24_RS29145 (NWF24_29145) lptB 6219818..6220612 (-) 795 WP_093054106.1 LPS export ABC transporter ATP-binding protein -
  NWF24_RS29150 (NWF24_29150) lptA 6220609..6221322 (-) 714 WP_258351565.1 lipopolysaccharide transport periplasmic protein LptA -
  NWF24_RS29155 (NWF24_29155) - 6221478..6222125 (-) 648 WP_093054102.1 thiol:disulfide interchange protein DsbA/DsbL -
  NWF24_RS29160 (NWF24_29160) - 6222268..6223032 (-) 765 WP_258351566.1 SPOR domain-containing protein -
  NWF24_RS29165 (NWF24_29165) argS 6223046..6224731 (-) 1686 WP_258351567.1 arginine--tRNA ligase -

Sequence

Protein


Download         Length: 533 a.a.        Molecular weight: 58795.96 Da        Isoelectric Point: 4.6333

>NTDB_id=719829 NWF24_RS29140 WP_093054107.1 6218199..6219800(-) (rpoN/rpoN1) [Variovorax paradoxus strain JBCE486]
MKQGLSLRVSQHLALTPQLQQSIRLLQLSTLELSQEVEQMLDENPFLERTAEEAAREEFGLDTADAPVPRDDGGDSGDGE
SDFASPAASASTASTETSTTTTADTDGPAAEITEREPDWEGDGTVDMAPDDSEWGSDAPARQNNLGDDERADATELARSQ
ESLQSFLHRQALSLRLNENDSAALRFLIESLNDDGYLEDSLPALASGLAGDDNDQFDDLVHHFQVALGLLQSLEPAGVGA
RDLGECLGIQLRALAREDETDEEELVRKIAIAICKQPMELLARRDFKRLATLTRSNEELVRSALQIIARLEPKPGRRFVD
VERNIVIPDVIVTKTGRGTNVKFRVMLNPEVMPRLRVHDIYAGALKSHKGEGSQALSQRLQEARWFIKNIQQRFDTILRV
SNAIVERQKSYFVHGELAMRPLVLREIADELGLHESTISRVTTAKYMATPFGTVELKYFFGSALGTETGGNASSTAVRAL
IKQFVSSESIKKPLSDSQISEMLKEQGIECARRTVAKYREALRIAPANLRKAL

Nucleotide


Download         Length: 1602 bp        

>NTDB_id=719829 NWF24_RS29140 WP_093054107.1 6218199..6219800(-) (rpoN/rpoN1) [Variovorax paradoxus strain JBCE486]
ATGAAGCAAGGGCTATCCCTTCGCGTTTCGCAGCATCTGGCGTTGACGCCACAGCTGCAGCAGTCGATCAGGCTGCTTCA
ACTCTCCACGCTCGAACTGAGCCAGGAGGTGGAGCAGATGCTCGACGAGAACCCGTTCCTCGAGCGCACGGCTGAAGAAG
CGGCGCGCGAGGAATTCGGGCTCGACACGGCCGATGCCCCGGTGCCGCGCGACGACGGCGGCGATAGCGGCGACGGCGAG
AGCGACTTCGCTTCCCCCGCCGCCAGCGCGTCCACTGCTTCCACCGAAACAAGCACCACCACCACGGCCGACACCGACGG
CCCCGCCGCCGAAATCACCGAGCGCGAGCCCGACTGGGAAGGCGACGGCACCGTCGACATGGCGCCCGACGACAGCGAAT
GGGGCAGCGACGCGCCCGCGCGCCAGAACAACCTGGGTGATGACGAACGCGCCGACGCCACCGAACTCGCGCGCAGCCAG
GAATCGCTGCAGTCCTTCCTGCACCGCCAGGCGCTGAGCCTGCGGCTGAACGAAAACGACAGCGCCGCGCTGCGCTTTCT
CATCGAATCGCTCAACGACGACGGCTACCTCGAAGACTCGCTGCCCGCACTGGCCTCGGGCCTGGCCGGCGACGACAACG
ACCAGTTCGACGACCTCGTGCATCACTTTCAGGTGGCGCTCGGCCTGCTGCAGAGCCTGGAGCCGGCTGGCGTCGGCGCG
CGCGACCTCGGCGAATGCCTGGGCATCCAGCTGCGCGCCTTGGCCCGCGAGGACGAGACCGACGAAGAAGAGCTGGTCCG
CAAGATCGCCATTGCCATCTGCAAGCAGCCAATGGAGCTGCTCGCGCGCCGCGACTTCAAGCGCCTGGCCACGCTCACCC
GCAGCAACGAGGAACTGGTGCGCTCGGCGCTGCAGATCATTGCGCGGCTCGAGCCCAAGCCGGGCCGGCGCTTCGTCGAC
GTCGAGCGCAACATCGTCATTCCCGACGTCATAGTCACCAAGACGGGCCGCGGCACCAACGTGAAGTTCCGCGTCATGCT
GAACCCCGAGGTGATGCCGCGCCTGCGCGTACACGACATCTACGCCGGCGCGCTCAAGTCGCACAAGGGCGAAGGCAGCC
AGGCGCTGTCGCAGCGGCTGCAGGAAGCGCGCTGGTTCATCAAGAACATCCAGCAGCGCTTCGACACCATCCTGCGCGTG
AGCAACGCGATCGTCGAGCGGCAGAAGAGCTACTTCGTGCACGGCGAGCTTGCGATGCGTCCGCTGGTGCTGCGCGAGAT
CGCCGACGAGCTGGGCCTGCACGAATCGACCATCTCGCGCGTGACCACCGCCAAGTACATGGCCACGCCCTTCGGCACGG
TCGAGCTCAAGTACTTCTTCGGCTCGGCGCTGGGCACCGAGACCGGCGGCAATGCGTCGAGCACCGCGGTGCGCGCGCTG
ATCAAGCAGTTCGTCAGCTCGGAGAGCATCAAGAAGCCGCTGTCGGACAGCCAGATCTCCGAGATGCTGAAAGAGCAGGG
CATCGAGTGCGCGCGCCGCACCGTGGCCAAGTACCGCGAGGCGCTGCGCATCGCGCCCGCCAACCTTCGCAAGGCCCTGT
AG

Domains

Predicted by InterproScan.

Sigma-54, DNA binding domain (Sigma54_DBD)

(375-531)

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

(5-48)

Sigma-54 factor, core binding domain (Sigma54_CBD)

(154-361)


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

51.124

100

0.512