Detailed information    

insolico Bioinformatically predicted

Overview

Name   rpoN/rpoN1   Type   Machinery gene
Locus tag   GFK26_RS04605 Genome accession   NZ_CP045644
Coordinates   1021318..1022910 (-) Length   530 a.a.
NCBI ID   WP_153280971.1    Uniprot ID   -
Organism   Variovorax paradoxus strain 5C-2     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 1016318..1027910
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  GFK26_RS04580 (GFK26_04590) - 1017095..1017706 (+) 612 WP_153280966.1 cytochrome b -
  GFK26_RS04585 (GFK26_04595) - 1017703..1018284 (+) 582 WP_153280967.1 YceI family protein -
  GFK26_RS04590 (GFK26_04600) - 1018323..1018958 (+) 636 WP_153280968.1 YceI family protein -
  GFK26_RS04595 (GFK26_04605) - 1018981..1019625 (+) 645 WP_153280969.1 LysE family translocator -
  GFK26_RS04600 (GFK26_04610) - 1019637..1021193 (-) 1557 WP_153280970.1 phospholipase D family protein -
  GFK26_RS04605 (GFK26_04620) rpoN/rpoN1 1021318..1022910 (-) 1593 WP_153280971.1 RNA polymerase factor sigma-54 Machinery gene
  GFK26_RS04610 (GFK26_04625) lptB 1022928..1023725 (-) 798 WP_101488358.1 LPS export ABC transporter ATP-binding protein -
  GFK26_RS04615 (GFK26_04630) lptA 1023722..1024444 (-) 723 WP_153280972.1 lipopolysaccharide transport periplasmic protein LptA -
  GFK26_RS04620 (GFK26_04635) - 1024575..1025219 (-) 645 WP_153280973.1 thiol:disulfide interchange protein DsbA/DsbL -
  GFK26_RS04625 (GFK26_04640) - 1025382..1026128 (-) 747 WP_153280974.1 SPOR domain-containing protein -
  GFK26_RS04630 (GFK26_04645) argS 1026143..1027828 (-) 1686 WP_153280975.1 arginine--tRNA ligase -

Sequence

Protein


Download         Length: 530 a.a.        Molecular weight: 58462.76 Da        Isoelectric Point: 4.6871

>NTDB_id=395787 GFK26_RS04605 WP_153280971.1 1021318..1022910(-) (rpoN/rpoN1) [Variovorax paradoxus strain 5C-2]
MKQGLSLRVSQHLALTPQLQQSIRLLQLSTLELSQEVEQMLDENPFLERTAEEAAREEFGLDAVDTPVPRDDGGDTGEGD
FAPSAPSASTASSEATTSTPESDGPAAEITEREPDWEGDGTVEMAPDDSEWGSDAPARQNNLGDDERADATELARSQESL
QSFLHRQALTLRLNENDCAALRFLIESLNDDGYLEDSLPALASGLAGDDNDQFDDLVHHFQVALGLLQSLEPAGVGARDL
GECLSIQLKALANEDETEAEALVRKTAIAICKQPMELLARRDFKRLATLTRTNEELVRSALQIIARLEPKPGRRFVDVER
NIVVPDVIVTKTGRGTNIKFRVMLNPEVMPRLRVHDIYAGALKSHKGEGSQALSQRLQEARWFIKNIQQRFDTILRVSNA
IVERQKSYFVHGELAMRPLVLREIADELGLHESTISRVTTAKYMSTPFGTVELKYFFGSALGTETGGNASSTAVRALIKQ
FVSSESIKKPLSDSQISEMLKEQGIECARRTVAKYREALRIAPANLRKAL

Nucleotide


Download         Length: 1593 bp        

>NTDB_id=395787 GFK26_RS04605 WP_153280971.1 1021318..1022910(-) (rpoN/rpoN1) [Variovorax paradoxus strain 5C-2]
ATGAAGCAAGGGCTGTCCCTTCGCGTCTCGCAGCATCTGGCGCTGACGCCTCAGCTGCAGCAGTCCATTCGCCTGCTCCA
ACTCTCCACGCTCGAACTGAGCCAGGAGGTGGAGCAGATGCTGGACGAGAACCCGTTCCTCGAACGCACCGCGGAAGAAG
CCGCGCGCGAGGAGTTCGGGCTCGATGCTGTCGACACGCCCGTGCCGCGCGACGACGGCGGTGACACCGGCGAGGGCGAT
TTCGCGCCGTCCGCCCCCAGTGCCTCCACCGCTTCCAGCGAAGCGACCACGTCCACACCGGAATCCGACGGCCCCGCGGC
CGAGATCACCGAGCGCGAGCCCGACTGGGAAGGCGACGGCACCGTCGAGATGGCGCCCGACGACAGCGAGTGGGGCAGCG
ATGCGCCCGCGCGCCAGAACAACCTCGGCGACGACGAGCGTGCCGACGCCACCGAACTCGCGCGCAGCCAGGAGTCGCTG
CAATCGTTCCTGCACCGCCAGGCGCTGACCCTGCGGCTCAACGAAAACGACTGCGCCGCGCTGCGCTTTTTGATCGAATC
GCTCAACGACGACGGTTACCTCGAAGACTCGCTGCCCGCGCTGGCCTCGGGCCTGGCGGGCGATGACAACGACCAGTTCG
ACGACCTCGTGCACCACTTCCAGGTGGCGCTGGGCCTGCTGCAGAGCCTGGAGCCCGCCGGTGTCGGCGCGCGCGACCTC
GGCGAATGCCTGAGCATTCAGCTGAAGGCGCTCGCGAACGAAGACGAGACCGAGGCCGAAGCGCTTGTGCGCAAGACCGC
CATCGCGATCTGCAAGCAGCCGATGGAGCTGCTCGCGCGGCGCGACTTCAAGCGCCTGGCCACGCTCACGCGGACGAATG
AAGAGCTGGTGCGCTCGGCGCTGCAGATCATTGCGCGGCTCGAGCCCAAGCCGGGGCGCCGTTTTGTCGACGTCGAACGC
AACATCGTCGTTCCCGACGTGATCGTCACCAAGACGGGCCGCGGCACCAACATCAAGTTCCGCGTCATGCTGAACCCCGA
GGTCATGCCGCGCCTGCGCGTGCACGACATCTACGCCGGTGCGCTCAAGTCGCACAAGGGCGAGGGCAGCCAGGCGCTGT
CGCAGCGGCTGCAGGAGGCGCGCTGGTTCATCAAGAACATCCAGCAGCGCTTCGACACCATCCTGCGCGTGAGCAACGCC
ATCGTCGAGCGGCAGAAGAGCTACTTCGTGCACGGCGAACTGGCCATGCGCCCGCTGGTGCTGCGCGAGATCGCCGACGA
ACTGGGCCTGCACGAATCGACCATCTCGCGTGTGACCACGGCCAAGTACATGTCGACGCCTTTCGGCACGGTCGAGCTCA
AGTACTTCTTCGGTTCGGCGCTGGGCACCGAGACCGGCGGCAACGCGTCGAGCACCGCGGTGCGCGCGCTGATCAAGCAG
TTCGTGAGTTCCGAGAGCATCAAGAAGCCGCTGTCCGACAGCCAGATTTCCGAGATGCTGAAAGAGCAGGGCATCGAGTG
CGCGCGCCGCACCGTGGCCAAGTACCGCGAGGCGCTGCGCATCGCGCCCGCCAACCTGCGCAAGGCCCTTTAA

Domains

Predicted by InterproScan.

Sigma-54 factor, core binding domain (Sigma54_CBD)

(151-358)

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

(5-48)

Sigma-54, DNA binding domain (Sigma54_DBD)

(372-528)


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

50.844

100

0.511

Multiple sequence alignment