Detailed information    

insolico Bioinformatically predicted

Overview

Name   rpoN/rpoN1   Type   Machinery gene
Locus tag   INQ48_RS03485 Genome accession   NZ_CP063166
Coordinates   733263..734852 (+) Length   529 a.a.
NCBI ID   WP_093350636.1    Uniprot ID   -
Organism   Variovorax paradoxus strain VAI-C     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 728263..739852
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  INQ48_RS03465 (INQ48_03465) - 729822..730583 (+) 762 WP_203204060.1 SPOR domain-containing protein -
  INQ48_RS03470 (INQ48_03470) - 730769..731416 (+) 648 WP_203204061.1 thiol:disulfide interchange protein DsbA/DsbL -
  INQ48_RS03475 (INQ48_03475) lptA 731728..732441 (+) 714 WP_203204062.1 lipopolysaccharide transport periplasmic protein LptA -
  INQ48_RS03480 (INQ48_03480) lptB 732438..733232 (+) 795 WP_203204063.1 LPS export ABC transporter ATP-binding protein -
  INQ48_RS03485 (INQ48_03485) rpoN/rpoN1 733263..734852 (+) 1590 WP_093350636.1 RNA polymerase factor sigma-54 Machinery gene
  INQ48_RS03490 (INQ48_03490) - 734863..736461 (+) 1599 WP_203204064.1 phospholipase D family protein -
  INQ48_RS03495 (INQ48_03495) - 736574..737362 (+) 789 WP_203204065.1 fumarylacetoacetate hydrolase family protein -
  INQ48_RS03500 (INQ48_03500) - 737373..738311 (-) 939 WP_093350643.1 LysR family transcriptional regulator -
  INQ48_RS03505 (INQ48_03505) - 738408..738869 (+) 462 WP_203204066.1 nuclear transport factor 2 family protein -

Sequence

Protein


Download         Length: 529 a.a.        Molecular weight: 58632.69 Da        Isoelectric Point: 4.6184

>NTDB_id=493679 INQ48_RS03485 WP_093350636.1 733263..734852(+) (rpoN/rpoN1) [Variovorax paradoxus strain VAI-C]
MKQGLSLRVSQHLALTPQLQQSIRLLQLSTLELSQEVEQMLDENPFLERTAEEAAREEFGLDAADTPAPREDTEREAESD
YASAAPSTSTTSTETTSSSEAEPALDSPEREPDWEGDGTVDMAPDDSEWGSDAPARNNSSTGDDERADATELARSQESLQ
SFLHRQALSLRLNENDSAALRFLIESLNDDGYLEDSLPALASGLAGDDNDQFDELVHHFQVALGLLQSLEPAGVGARDLG
ECLAIQLRALADEDETEDEELVRKTALAICKQPMELLARRDFKRLATLTRTNEELVRSALQIIARLEPKPGRRFVDVERN
IVIPDVIVTKTGRGTNVKFRVMLNPEVMPRLRVHDIYAGALKSHKGEGSQALSQRLQEARWFIKNIQQRFDTILRVSNAI
VERQKSYFVHGELAMRPLVLREIADELGLHESTISRVTTAKYMSTPFGTVELKYFFGSALGTETGGNASSTAVRALIKQF
VGSESVKKPLSDSQISEMLKEQGIECARRTVAKYREALRIAPANLRKAL

Nucleotide


Download         Length: 1590 bp        

>NTDB_id=493679 INQ48_RS03485 WP_093350636.1 733263..734852(+) (rpoN/rpoN1) [Variovorax paradoxus strain VAI-C]
ATGAAACAAGGCTTGTCGCTGCGCGTTTCGCAGCATCTCGCGCTGACGCCTCAGCTGCAGCAGTCGATCCGGCTGCTGCA
GCTCTCCACGCTCGAACTGAGCCAGGAGGTCGAGCAGATGCTCGACGAGAACCCCTTCCTCGAGCGCACCGCCGAGGAAG
CCGCGCGCGAGGAATTCGGCCTCGACGCCGCCGACACGCCCGCGCCGCGCGAGGACACCGAGCGCGAGGCCGAGAGCGAC
TACGCGAGCGCCGCGCCCTCGACCTCGACCACGTCCACCGAGACCACCTCGTCGTCCGAGGCCGAGCCGGCCCTCGACTC
GCCCGAGCGCGAGCCCGACTGGGAAGGCGACGGCACCGTCGACATGGCGCCCGACGACAGCGAATGGGGCAGCGACGCGC
CCGCGCGCAACAACAGCAGCACCGGCGACGACGAGCGCGCCGATGCCACCGAGCTCGCGCGCAGCCAGGAATCGCTGCAG
TCCTTCCTGCACCGCCAGGCGCTGAGCCTGCGGCTCAACGAGAACGACAGCGCCGCGCTGCGCTTCTTGATCGAATCGCT
CAACGACGACGGCTACCTCGAGGATTCGCTGCCGGCGCTGGCCTCGGGCCTCGCGGGCGACGACAACGACCAGTTCGACG
AGCTGGTGCATCACTTCCAGGTCGCGCTCGGCCTGCTGCAGAGCCTGGAGCCCGCGGGCGTGGGCGCGCGCGACCTCGGC
GAATGCCTCGCGATCCAGCTGCGCGCGCTGGCCGACGAGGACGAGACCGAGGACGAGGAGCTGGTGCGCAAGACCGCGCT
CGCCATCTGCAAGCAGCCGATGGAGCTGCTCGCGCGGCGCGACTTCAAGCGCCTGGCCACGCTCACGCGAACTAATGAAG
AACTGGTGCGCTCGGCGCTGCAGATCATCGCGCGCCTGGAGCCCAAGCCGGGCCGCCGCTTCGTCGACGTCGAGCGCAAC
ATCGTCATTCCCGATGTGATCGTCACCAAGACCGGCCGCGGCACCAACGTGAAGTTCCGCGTCATGCTCAACCCCGAGGT
GATGCCGCGGCTGCGCGTGCACGACATCTACGCCGGCGCGCTCAAGTCGCACAAGGGCGAGGGCAGCCAGGCGCTGTCGC
AGCGGCTGCAGGAAGCGCGCTGGTTCATCAAGAACATCCAGCAGCGCTTCGACACCATTCTTCGCGTCAGCAACGCCATC
GTCGAGCGGCAGAAGAGCTACTTCGTGCACGGCGAACTCGCGATGCGCCCGCTGGTGCTGCGCGAGATCGCCGACGAGCT
CGGGCTGCACGAGTCCACCATCTCGCGCGTGACCACCGCCAAGTACATGTCGACGCCCTTCGGCACGGTCGAGCTCAAGT
ACTTCTTCGGCTCGGCGCTGGGCACCGAGACCGGCGGCAATGCCTCGAGCACGGCCGTGCGCGCGCTGATCAAGCAGTTC
GTCGGTTCGGAGAGCGTGAAGAAGCCGCTGTCGGACAGCCAGATCTCCGAGATGCTCAAGGAGCAGGGCATCGAGTGCGC
GCGCCGCACGGTCGCCAAGTACCGCGAGGCGCTGCGCATCGCGCCCGCCAACCTGCGCAAGGCCCTCTAG

Domains

Predicted by InterproScan.

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

(5-48)

Sigma-54, DNA binding domain (Sigma54_DBD)

(371-527)

Sigma-54 factor, core binding domain (Sigma54_CBD)

(150-357)


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

52.158

100

0.526