Detailed information    

insolico Bioinformatically predicted

Overview

Name   rpoN/rpoN1   Type   Machinery gene
Locus tag   VAPA_RS02720 Genome accession   NC_022247
Coordinates   592841..594433 (+) Length   530 a.a.
NCBI ID   WP_021005237.1    Uniprot ID   -
Organism   Variovorax paradoxus B4     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 587841..599433
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  VAPA_RS02695 (VAPA_1c05410) argS 587897..589582 (+) 1686 WP_021005232.1 arginine--tRNA ligase -
  VAPA_RS02700 (VAPA_1c05420) - 589591..590325 (+) 735 WP_021005233.1 SPOR domain-containing protein -
  VAPA_RS02705 (VAPA_1c05430) - 590470..591117 (+) 648 WP_021005234.1 thiol:disulfide interchange protein DsbA/DsbL -
  VAPA_RS02710 (VAPA_1c05440) lptA 591313..592032 (+) 720 WP_021005235.1 lipopolysaccharide transport periplasmic protein LptA -
  VAPA_RS02715 (VAPA_1c05450) lptB 592029..592823 (+) 795 WP_021005236.1 LPS export ABC transporter ATP-binding protein -
  VAPA_RS02720 (VAPA_1c05460) rpoN/rpoN1 592841..594433 (+) 1593 WP_021005237.1 RNA polymerase factor sigma-54 Machinery gene
  VAPA_RS02725 (VAPA_1c05470) - 594444..596048 (+) 1605 WP_021005238.1 phospholipase D family protein -
  VAPA_RS02730 (VAPA_1c05480) - 596055..596696 (-) 642 WP_021005239.1 LysE family translocator -
  VAPA_RS02735 (VAPA_1c05490) - 596701..597336 (-) 636 WP_021005240.1 YceI family protein -
  VAPA_RS02740 (VAPA_1c05500) - 597377..597955 (-) 579 WP_021005241.1 YceI family protein -
  VAPA_RS02745 (VAPA_1c05510) - 597952..598581 (-) 630 WP_021005242.1 cytochrome b -

Sequence

Protein


Download         Length: 530 a.a.        Molecular weight: 58432.83 Da        Isoelectric Point: 4.7226

>NTDB_id=61927 VAPA_RS02720 WP_021005237.1 592841..594433(+) (rpoN/rpoN1) [Variovorax paradoxus B4]
MKQGLSLRVSQHLALTPQLQQSIRLLQLSTLELSQEVEQMLDENPFLERTAEEAAREEFGLDAIDTPVPRDEAGEAAEGE
FAAAPISSATTASTETASTAEADTPAADATEREPDWEGDGTVDMAPDDSEWGSDAPARQNNLGDDERADATELARSQESL
QSFLHRQALSLRLNENDSAALRFLIESLNDDGYLEDSLPALASGLAGDDNDQFDELVHHFQVALGLLQSLEPAGVGARDL
GECLCIQLRALASESETEEQALVRKTAIAICKQPMELLARRDFKRLATLTRTNEEVVRSALQVISRLEPKPGRRFVDVER
NIVIPDVIVTKIGRGTNAKFRVMLNPEVMPRLRVHDIYAGALKSHKGEGSQALSQRLQEARWFIKNIQQRFDTILRVSNA
IVERQKSFFVHGELAMRPLVLREIADELGLHESTISRVTTAKYMATPFGTVELKYFFGSALGTETGGNASSTAVRALIKQ
FVSSESIKKPLSDSQISEMLKEQGIECARRTVAKYREALRIAPANLRKAL

Nucleotide


Download         Length: 1593 bp        

>NTDB_id=61927 VAPA_RS02720 WP_021005237.1 592841..594433(+) (rpoN/rpoN1) [Variovorax paradoxus B4]
ATGAAGCAAGGGCTGTCCCTTCGCGTTTCGCAGCATCTGGCGCTCACGCCCCAGCTGCAGCAGTCGATCCGGCTGCTGCA
GCTCTCCACGCTCGAACTGAGCCAGGAGGTGGAGCAGATGCTGGACGAGAACCCGTTCCTCGAACGCACCGCGGAAGAAG
CCGCGCGCGAGGAATTCGGGCTCGATGCCATCGATACGCCGGTGCCCCGCGACGAGGCCGGTGAAGCCGCCGAGGGCGAA
TTCGCCGCGGCTCCCATCAGCAGCGCGACGACCGCTTCCACCGAAACCGCCTCCACGGCCGAGGCCGACACTCCCGCCGC
CGATGCCACCGAGCGCGAGCCCGACTGGGAGGGCGACGGCACCGTCGACATGGCGCCGGACGACAGCGAGTGGGGCAGCG
ACGCCCCCGCGCGCCAGAACAACCTCGGCGACGACGAGCGCGCCGACGCCACCGAACTCGCGCGCAGCCAGGAGTCGCTG
CAATCCTTCCTGCACCGACAGGCGCTCAGCCTGCGGCTCAACGAGAACGACAGCGCGGCGCTGCGCTTCCTGATCGAATC
GCTCAACGACGACGGCTACCTCGAGGATTCGCTGCCGGCACTGGCTTCGGGCCTCGCGGGCGACGACAACGACCAGTTCG
ACGAACTGGTGCATCACTTCCAGGTGGCGCTCGGCCTGCTGCAGAGCCTGGAGCCCGCCGGCGTGGGCGCGCGCGACCTG
GGCGAATGCCTTTGCATCCAGCTGCGCGCACTCGCGAGCGAAAGCGAGACCGAGGAACAGGCGCTGGTGCGCAAGACCGC
CATCGCCATCTGCAAGCAGCCGATGGAGCTGCTCGCGCGGCGCGACTTCAAGCGCCTGGCCACGCTCACGCGCACCAACG
AAGAGGTGGTGCGCTCGGCGCTGCAGGTCATCTCGCGCCTGGAGCCCAAGCCGGGCCGCCGCTTCGTCGACGTCGAGCGC
AACATCGTCATTCCCGACGTGATCGTCACCAAGATCGGCCGCGGCACCAACGCCAAGTTCCGCGTCATGCTCAACCCCGA
GGTGATGCCGCGGCTGCGCGTGCACGACATCTATGCCGGCGCGCTCAAGTCGCACAAGGGCGAGGGCAGCCAGGCGCTGT
CGCAGCGGCTGCAGGAGGCGCGCTGGTTCATCAAGAACATCCAGCAGCGCTTCGACACCATCCTGCGCGTGAGCAACGCC
ATCGTCGAGCGGCAGAAGAGCTTCTTCGTGCACGGCGAACTCGCGATGCGGCCCTTGGTGCTGCGCGAGATTGCCGACGA
ACTCGGCCTGCACGAATCGACCATCTCGCGCGTGACCACGGCCAAGTACATGGCCACGCCTTTCGGCACGGTCGAGCTCA
AGTACTTCTTCGGTTCGGCGCTGGGCACCGAGACCGGCGGCAATGCGTCGAGCACCGCAGTGCGCGCGCTGATCAAGCAG
TTCGTGAGTTCCGAGAGCATCAAGAAGCCGCTGTCCGACAGCCAGATTTCCGAGATGCTCAAGGAGCAGGGCATCGAATG
CGCGCGGCGCACCGTGGCCAAGTACCGCGAAGCCTTGCGCATCGCGCCGGCCAACCTGCGCAAGGCCCTGTAG

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

52.542

100

0.526

Multiple sequence alignment