Detailed information    

insolico Bioinformatically predicted

Overview

Name   rpoN/rpoN1   Type   Machinery gene
Locus tag   C4F17_RS16370 Genome accession   NZ_CP027773
Coordinates   3535850..3537457 (-) Length   535 a.a.
NCBI ID   WP_106935947.1    Uniprot ID   -
Organism   Variovorax sp. PMC12     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 3530850..3542457
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  C4F17_RS16340 (C4F17_16340) - 3531251..3531844 (+) 594 WP_106935943.1 cytochrome b -
  C4F17_RS16345 (C4F17_16345) - 3531841..3532422 (+) 582 WP_081267822.1 YceI family protein -
  C4F17_RS16350 (C4F17_16350) - 3532466..3533122 (+) 657 WP_199851862.1 YceI family protein -
  C4F17_RS16355 (C4F17_16355) - 3533162..3533419 (-) 258 WP_081267820.1 hypothetical protein -
  C4F17_RS16360 (C4F17_16360) - 3533565..3534209 (+) 645 WP_106935945.1 LysE family translocator -
  C4F17_RS16365 (C4F17_16365) - 3534238..3535839 (-) 1602 WP_106935946.1 phospholipase D family protein -
  C4F17_RS16370 (C4F17_16370) rpoN/rpoN1 3535850..3537457 (-) 1608 WP_106935947.1 RNA polymerase factor sigma-54 Machinery gene
  C4F17_RS16375 (C4F17_16375) lptB 3537478..3538272 (-) 795 WP_106935948.1 LPS export ABC transporter ATP-binding protein -
  C4F17_RS16380 (C4F17_16380) lptA 3538269..3538979 (-) 711 WP_106935949.1 lipopolysaccharide transport periplasmic protein LptA -
  C4F17_RS16385 (C4F17_16385) - 3539104..3539751 (-) 648 WP_106935950.1 thiol:disulfide interchange protein DsbA/DsbL -
  C4F17_RS16390 (C4F17_16390) - 3539902..3540666 (-) 765 WP_106937586.1 SPOR domain-containing protein -
  C4F17_RS16395 (C4F17_16395) argS 3540678..3542363 (-) 1686 WP_106935951.1 arginine--tRNA ligase -

Sequence

Protein


Download         Length: 535 a.a.        Molecular weight: 58891.91 Da        Isoelectric Point: 4.5471

>NTDB_id=280486 C4F17_RS16370 WP_106935947.1 3535850..3537457(-) (rpoN/rpoN1) [Variovorax sp. PMC12]
MKQGLSLRVSQHLALTPQLQQSIRLLQLSTLELSQEVEQMLDENPFLERTAEEAAREEFGLDTADAPAARDDGSDGGDGE
SDFTPPPASTSTASTETATTTTADSDGPAAEIAEREPDWEGDGTVDMAPDDSEWGSDAPARQNNLGDDERADATELARSQ
ESLQSFLHRQALSLRLSENDSAALRFLIESLNDDGYLEDSLPALASGLAGDDNDQFDDLVHHFQVALGLLQSLEPVGVGA
RDLGECLSIQLRALAAEDDDEDEEQAQVYKTAIAICKQPMELLARRDFKRLATLTRSSEELVRSALQVIARLEPKPGRRF
VDVERNIVIPDVIVTKTGRGTNVKFRVMLNPEVMPRLRVHDIYAGALKSHKGEGSQALSQRLQEARWFIKNIQQRFDTIL
RVSNAIVERQKSYFVHGELAMRPLVLREIADELGLHESTISRVTTAKYMATPFGTVELKYFFGSALGTETGGNASSTAVR
ALIKQFVSSESIKKPLSDSQISEMLKEQGIECARRTVAKYREALRIAPANLRKAL

Nucleotide


Download         Length: 1608 bp        

>NTDB_id=280486 C4F17_RS16370 WP_106935947.1 3535850..3537457(-) (rpoN/rpoN1) [Variovorax sp. PMC12]
ATGAAGCAAGGGCTGTCCCTTCGCGTCTCGCAGCACTTGGCGTTGACGCCCCAGCTGCAGCAGTCGATCAGGCTGCTCCA
ACTCTCCACGCTCGAACTGAGCCAGGAAGTGGAGCAGATGCTCGACGAGAACCCCTTCCTCGAGCGCACCGCGGAAGAAG
CGGCGCGCGAGGAGTTCGGGCTCGACACCGCCGACGCCCCCGCTGCGCGCGATGACGGCAGTGACGGCGGCGACGGCGAG
AGCGACTTCACCCCGCCGCCCGCCAGCACCTCCACCGCCTCGACCGAGACCGCCACCACCACCACGGCCGACTCCGACGG
CCCCGCCGCCGAGATCGCCGAGCGCGAGCCCGACTGGGAAGGCGACGGCACCGTCGACATGGCGCCCGACGACAGCGAGT
GGGGCAGCGACGCTCCCGCGCGCCAGAACAACCTGGGCGACGACGAACGCGCCGACGCCACCGAACTCGCGCGCAGCCAG
GAATCGCTGCAGTCGTTCCTGCACCGCCAGGCGCTGAGCCTGCGCCTGAGCGAGAACGACAGCGCCGCGCTGCGCTTCCT
GATCGAGTCGCTCAACGACGACGGCTACCTCGAAGACTCCCTGCCTGCGCTGGCCTCGGGCCTGGCCGGCGACGACAACG
ACCAGTTCGACGACCTGGTGCACCACTTCCAGGTGGCGCTCGGCCTGCTGCAGAGCCTGGAGCCGGTGGGCGTGGGGGCG
CGCGACCTCGGCGAATGCCTGAGCATCCAGCTGCGCGCGCTGGCCGCCGAGGACGACGACGAAGACGAAGAGCAGGCACA
GGTCTACAAGACCGCGATCGCCATCTGCAAGCAGCCGATGGAACTGCTCGCGCGGCGCGACTTCAAGCGCCTGGCCACGC
TCACCCGCAGCAGCGAAGAGCTGGTGCGCTCGGCGCTGCAGGTCATTGCGCGGCTGGAGCCCAAGCCGGGGCGCCGTTTC
GTCGACGTCGAGCGCAACATCGTCATTCCCGACGTGATCGTCACCAAGACCGGACGCGGCACCAACGTCAAGTTCCGCGT
CATGCTGAATCCCGAGGTCATGCCGCGCCTGCGCGTGCACGACATCTATGCCGGCGCGCTCAAGTCGCACAAGGGCGAGG
GCAGCCAGGCGCTGTCGCAGCGGCTGCAGGAGGCGCGCTGGTTCATCAAGAACATCCAGCAGCGCTTCGACACCATCCTG
CGCGTGAGCAACGCCATCGTCGAGCGCCAGAAGAGCTACTTCGTGCACGGCGAGCTGGCCATGCGCCCGCTGGTGCTGCG
CGAAATTGCGGACGAACTGGGCCTGCACGAATCCACCATCTCGCGCGTGACCACCGCCAAGTACATGGCCACGCCGTTCG
GCACGGTCGAGCTGAAGTATTTCTTCGGCTCGGCGCTGGGCACCGAGACCGGCGGCAATGCGTCGAGCACGGCGGTGCGC
GCGCTGATCAAGCAGTTCGTGAGCTCCGAGAGCATCAAGAAGCCGCTGTCGGACAGCCAGATCTCCGAGATGCTGAAGGA
GCAGGGCATCGAGTGCGCGCGCCGCACCGTGGCCAAGTACCGCGAAGCCTTGCGCATTGCGCCCGCCAACCTGCGCAAGG
CCCTGTAG

Domains

Predicted by InterproScan.

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

(5-48)

Sigma-54, DNA binding domain (Sigma54_DBD)

(377-533)

Sigma-54 factor, core binding domain (Sigma54_CBD)

(154-363)


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

51.493

100

0.516

Multiple sequence alignment