Detailed information    

insolico Bioinformatically predicted

Overview

Name   rpoN/rpoN1   Type   Machinery gene
Locus tag   VARPA_RS02420 Genome accession   NC_014931
Coordinates   522942..524531 (+) Length   529 a.a.
NCBI ID   WP_013538952.1    Uniprot ID   E6V4G0
Organism   Variovorax paradoxus EPS     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 517942..529531
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  VARPA_RS02395 (Varpa_0479) argS 517949..519634 (+) 1686 WP_013538947.1 arginine--tRNA ligase -
  VARPA_RS02400 (Varpa_0480) - 519646..520413 (+) 768 WP_013538948.1 SPOR domain-containing protein -
  VARPA_RS02405 (Varpa_0481) - 520574..521221 (+) 648 WP_013538949.1 thiol:disulfide interchange protein DsbA/DsbL -
  VARPA_RS02410 (Varpa_0482) lptA 521416..522132 (+) 717 WP_013538950.1 lipopolysaccharide transport periplasmic protein LptA -
  VARPA_RS02415 (Varpa_0483) lptB 522129..522923 (+) 795 WP_013538951.1 LPS export ABC transporter ATP-binding protein -
  VARPA_RS02420 (Varpa_0484) rpoN/rpoN1 522942..524531 (+) 1590 WP_013538952.1 RNA polymerase factor sigma-54 Machinery gene
  VARPA_RS02425 (Varpa_0485) - 524542..526143 (+) 1602 WP_013538953.1 phospholipase D family protein -
  VARPA_RS02430 (Varpa_0486) - 526263..526910 (-) 648 WP_013538954.1 LysE family translocator -
  VARPA_RS02435 (Varpa_0487) - 526924..527556 (-) 633 WP_041942744.1 YceI family protein -
  VARPA_RS02440 (Varpa_0488) - 527606..528184 (-) 579 WP_013538956.1 YceI family protein -
  VARPA_RS02445 (Varpa_0489) - 528210..528791 (-) 582 WP_013538957.1 cytochrome b -

Sequence

Protein


Download         Length: 529 a.a.        Molecular weight: 58524.73 Da        Isoelectric Point: 4.6307

>NTDB_id=39542 VARPA_RS02420 WP_013538952.1 522942..524531(+) (rpoN/rpoN1) [Variovorax paradoxus EPS]
MKQGLSLRVSQHLALTPQLQQSIRLLQLSTLELSQEVEQMLDENPFLERTAEEAAREEFGLDAVDTPVPRDDGGETGEGD
FAPVSTSSATTTTETSSTPDSDGPAAEITEREPDWEGDGTVDMAPDDSEWGSDAPARQNNLGDDERADATELARSQESLQ
SFLHRQALSLRLNENDSAALRFLIESLNDDGYLEDSLPALASGLAGDDNDQFDDLVHHFQVALGLLQSLEPAGVGARDLG
ECLGIQLRALASEDETEDEELIRKTAIAICKQPMELLARRDFKRLATLTRTNEELVRSALQIIARLEPKPGRRFVDVERN
IVIPDVIVTKTGRGTNIKFRVMLNPEVMPRLRVHDIYAGALKSHKGEGSQALSQRLQEARWFIKNIQQRFDTILRVSNAI
VERQKSYFVHGELAMRPLVLREIADELGLHESTISRVTTAKYMSTPFGTVELKYFFGSALGTETGGNASSTAVRALIKQF
VSSESIKKPLSDSQISEMLKEQGIECARRTVAKYREALRIAPANLRKAL

Nucleotide


Download         Length: 1590 bp        

>NTDB_id=39542 VARPA_RS02420 WP_013538952.1 522942..524531(+) (rpoN/rpoN1) [Variovorax paradoxus EPS]
ATGAAGCAAGGGCTGTCCCTTCGCGTCTCGCAGCATCTGGCGCTCACGCCACAACTGCAGCAGTCGATCCGGCTGCTGCA
GCTCTCCACGCTCGAACTGAGCCAGGAGGTCGAGCAGATGCTGGACGAGAACCCGTTCCTCGAGCGCACCGCTGAAGAAG
CGGCGCGCGAGGAATTCGGGCTCGATGCCGTCGACACGCCGGTGCCGCGCGACGACGGCGGTGAAACCGGCGAAGGCGAT
TTCGCCCCGGTCTCGACCAGCAGTGCGACGACCACGACCGAGACCTCCTCCACGCCCGACTCCGACGGCCCTGCCGCCGA
GATCACCGAGCGCGAGCCCGACTGGGAAGGCGACGGCACCGTCGACATGGCGCCCGACGACAGCGAGTGGGGCAGCGACG
CCCCCGCGCGCCAGAACAACCTGGGCGACGACGAACGCGCCGACGCCACCGAACTTGCGCGCAGCCAGGAGTCGCTGCAG
TCGTTCCTGCACCGCCAGGCGCTGAGCCTGCGCCTGAACGAGAACGACAGCGCTGCGCTGCGCTTCCTCATCGAGTCGCT
CAACGACGACGGCTACCTCGAAGACTCGCTCCCCGCGCTGGCCTCGGGCCTCGCGGGCGACGACAACGACCAGTTCGACG
ACCTCGTGCATCACTTCCAGGTGGCACTCGGGCTGCTGCAGAGCCTGGAGCCTGCCGGCGTCGGTGCGCGCGACCTGGGC
GAATGCCTGGGCATCCAGCTGCGCGCGCTCGCCAGCGAAGACGAGACCGAGGACGAAGAACTCATCCGCAAGACCGCCAT
CGCGATCTGCAAGCAGCCGATGGAGCTGCTCGCGCGGCGCGACTTCAAGCGCCTGGCCACGCTCACGCGAACCAACGAAG
AACTGGTGCGCTCGGCGCTGCAGATCATTGCGCGACTGGAGCCCAAGCCGGGCCGGCGCTTCGTCGACGTCGAGCGCAAC
ATCGTCATTCCCGACGTGATCGTCACCAAGACGGGCCGCGGCACCAACATCAAGTTCCGCGTCATGCTGAACCCCGAGGT
GATGCCGCGCCTGCGCGTGCACGACATCTACGCGGGCGCGCTCAAGTCGCACAAGGGCGAGGGCAGCCAGGCGCTCTCGC
AGCGGCTGCAGGAGGCGCGCTGGTTCATCAAGAACATCCAGCAGCGCTTCGACACCATCCTGCGCGTGAGCAACGCCATC
GTCGAGCGCCAGAAGAGCTACTTCGTGCACGGCGAGCTCGCGATGCGCCCGCTGGTGCTGCGCGAGATCGCCGACGAGCT
GGGCCTGCACGAATCGACCATCTCGCGCGTGACCACCGCCAAGTACATGTCCACGCCGTTCGGCACGGTCGAACTCAAGT
ACTTCTTCGGCTCGGCGCTCGGCACCGAGACCGGCGGCAACGCATCGAGCACCGCGGTGCGCGCGCTCATCAAGCAGTTC
GTGAGCTCCGAGAGCATCAAGAAGCCGCTGTCGGACAGCCAGATCTCCGAGATGCTGAAGGAGCAGGGCATCGAGTGCGC
GCGCCGCACCGTGGCCAAGTACCGCGAGGCGCTGCGCATCGCGCCCGCCAACCTTCGCAAAGCCCTTTAG

Domains

Predicted by InterproScan.

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

(5-48)

Sigma-54 factor, core binding domain (Sigma54_CBD)

(150-357)

Sigma-54, DNA binding domain (Sigma54_DBD)

(371-527)


Secondary structure

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



3D structure

Source ID Structure
  AlphaFold DB E6V4G0

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

51.128

100

0.514

Multiple sequence alignment