Detailed information    

insolico Bioinformatically predicted

Overview

Name   rpoN/rpoN1   Type   Machinery gene
Locus tag   PNAP_RS18550 Genome accession   NC_008781
Coordinates   3952112..3953677 (+) Length   521 a.a.
NCBI ID   WP_011803072.1    Uniprot ID   A1VTM8
Organism   Polaromonas naphthalenivorans CJ2     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 3947112..3958677
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  PNAP_RS27130 (Pnap_3706) - 3948547..3949224 (+) 678 WP_198140653.1 hypothetical protein -
  PNAP_RS18535 (Pnap_3707) - 3949373..3950488 (+) 1116 WP_011803069.1 glycosyltransferase -
  PNAP_RS18540 (Pnap_3708) lptA 3950655..3951299 (+) 645 WP_011803070.1 lipopolysaccharide transport periplasmic protein LptA -
  PNAP_RS18545 (Pnap_3709) lptB 3951304..3952101 (+) 798 WP_011803071.1 LPS export ABC transporter ATP-binding protein -
  PNAP_RS18550 (Pnap_3710) rpoN/rpoN1 3952112..3953677 (+) 1566 WP_011803072.1 RNA polymerase factor sigma-54 Machinery gene
  PNAP_RS18555 (Pnap_3711) - 3953825..3955240 (+) 1416 WP_011803073.1 class I SAM-dependent RNA methyltransferase -
  PNAP_RS18560 (Pnap_3712) - 3955243..3955680 (+) 438 WP_041376805.1 putative toxin-antitoxin system toxin component, PIN family -
  PNAP_RS18565 (Pnap_3713) - 3955720..3956163 (-) 444 WP_011803075.1 hypothetical protein -
  PNAP_RS18570 - 3956210..3956419 (-) 210 WP_157040324.1 hypothetical protein -
  PNAP_RS25880 - 3956792..3956968 (+) 177 WP_157040325.1 hypothetical protein -
  PNAP_RS18575 (Pnap_3715) - 3956983..3957369 (-) 387 WP_011803077.1 type II toxin-antitoxin system VapC family toxin -
  PNAP_RS18580 (Pnap_3716) - 3957366..3957611 (-) 246 WP_011803078.1 type II toxin-antitoxin system Phd/YefM family antitoxin -

Sequence

Protein


Download         Length: 521 a.a.        Molecular weight: 57326.34 Da        Isoelectric Point: 4.7701

>NTDB_id=27281 PNAP_RS18550 WP_011803072.1 3952112..3953677(+) (rpoN/rpoN1) [Polaromonas naphthalenivorans CJ2]
MKQGLSLRVSQHLALTPQLQQSIRLLQLSTLELSQEVEQMLDENPFLEVADDSAPREEFGLDQTDTPVSQDSREFDSATD
SIAINTDTSSASSQKESETTAEASTEATLEESWEGDGSVESSPDDSEWGGDAPARKNNLDDSDAEASDLTGAHESLQDHL
HRQALALRLSEVDRAALHFLIESLNDDGYLEDSLASLAAGLAHGDLEQTEELEQCFAMALQLLQHMEPAGVGARTLAECL
NLQLLDCKDCEETRAAIAICKQPMELLAKRDFKRLASLCRFSEDAIKGAMAVIARLDPKPGRRFANVERNLIVPDVIVVK
SGRGFKVTLNSDVMPRLRVHDIYANALKQHSGRGSSGPGGGQALQQRLQEARWFIKNIQQRFDTILRVSNAIVERQKNFF
THGELAMRPLVLREIADELGLHESTISRVTTAKYMGTPFGTFELKYFFGSGLGTESGGNASSTAVRALIKQFVASESPRK
PLSDSQISEMLKEQGIECARRTVAKYREALRIAPTNLRKAL

Nucleotide


Download         Length: 1566 bp        

>NTDB_id=27281 PNAP_RS18550 WP_011803072.1 3952112..3953677(+) (rpoN/rpoN1) [Polaromonas naphthalenivorans CJ2]
ATGAAGCAAGGTCTTTCCCTCCGCGTCTCGCAGCACCTGGCGCTCACGCCGCAACTGCAGCAGTCGATCCGGCTGCTGCA
GCTTTCGACGCTGGAGTTGAGCCAGGAAGTCGAGCAGATGCTTGATGAAAATCCTTTTCTTGAAGTGGCCGACGACTCGG
CGCCGCGCGAAGAGTTTGGCCTGGACCAGACCGACACGCCCGTCAGCCAGGACAGCCGCGAATTTGATTCCGCTACGGAT
TCGATAGCTATAAACACAGACACATCGAGCGCAAGCAGCCAAAAAGAGTCTGAAACCACGGCAGAAGCAAGCACCGAAGC
CACGCTCGAAGAAAGCTGGGAAGGCGACGGCTCGGTCGAGTCCTCGCCCGATGACAGCGAATGGGGCGGCGATGCGCCGG
CGCGCAAGAACAACCTGGACGACAGCGACGCCGAAGCCTCGGACCTGACCGGCGCCCATGAGTCGCTGCAGGACCACCTG
CACCGCCAGGCGCTGGCCCTGCGCCTGTCCGAAGTGGACCGCGCCGCCCTGCACTTCCTGATCGAGTCGCTCAATGACGA
CGGCTACCTCGAAGACAGTCTGGCCTCGCTCGCGGCCGGCCTGGCGCATGGCGACCTGGAGCAGACCGAGGAGCTGGAGC
AGTGCTTCGCCATGGCGCTGCAGTTGCTGCAGCACATGGAGCCGGCCGGCGTCGGCGCGCGCACCCTGGCCGAATGCCTG
AACCTGCAACTGCTCGATTGCAAGGATTGCGAGGAAACCCGCGCCGCCATTGCCATCTGCAAGCAACCGATGGAGCTGCT
GGCCAAGCGCGATTTCAAGCGCCTGGCCAGCCTGTGCCGGTTCTCCGAGGACGCCATCAAGGGCGCCATGGCCGTGATTG
CGCGCCTGGACCCCAAGCCCGGCCGGCGCTTTGCCAATGTCGAGCGCAACCTGATCGTTCCCGACGTGATCGTCGTCAAG
TCCGGCCGGGGCTTCAAGGTCACGCTCAACAGCGACGTGATGCCCCGGCTGCGGGTCCACGACATCTACGCCAACGCCCT
CAAGCAGCACAGCGGCCGGGGCAGCAGCGGCCCGGGCGGCGGGCAGGCGCTGCAGCAGCGGCTGCAGGAAGCGCGCTGGT
TCATCAAGAACATCCAGCAGCGTTTCGACACCATCCTGCGGGTCAGCAACGCCATCGTGGAGCGGCAGAAAAACTTCTTC
ACCCACGGCGAACTCGCCATGCGGCCGCTGGTGCTGCGCGAGATCGCCGACGAGCTGGGCCTGCACGAATCGACCATTTC
GCGCGTGACCACGGCCAAGTACATGGGCACGCCGTTCGGCACCTTCGAGCTGAAGTATTTCTTCGGCTCCGGGCTGGGCA
CCGAGAGCGGCGGCAATGCGTCGAGCACCGCCGTGCGCGCGCTCATCAAGCAGTTCGTCGCCTCCGAAAGCCCCAGGAAG
CCGCTCAGCGACAGCCAGATTTCCGAGATGCTCAAGGAGCAGGGCATCGAATGCGCGCGCCGCACGGTGGCCAAATACCG
CGAGGCCCTGCGCATCGCACCGACCAATTTGCGCAAGGCGCTGTGA

Domains

Predicted by InterproScan.

Sigma-54 factor, core binding domain (Sigma54_CBD)

(149-343)

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

(5-49)

Sigma-54, DNA binding domain (Sigma54_DBD)

(363-519)


Secondary structure

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



3D structure

Source ID Structure
  AlphaFold DB A1VTM8

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

52.941

100

0.536

Multiple sequence alignment