Detailed information    

insolico Bioinformatically predicted

Overview

Name   rpoN/rpoN1   Type   Machinery gene
Locus tag   DT070_RS08375 Genome accession   NZ_CP031013
Coordinates   1752884..1754419 (+) Length   511 a.a.
NCBI ID   WP_122954980.1    Uniprot ID   -
Organism   Polaromonas sp. SP1     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 1747884..1759419
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  DT070_RS08355 (DT070_08350) - 1749522..1750151 (+) 630 WP_122954977.1 SPOR domain-containing protein -
  DT070_RS08360 (DT070_08355) - 1750255..1750914 (+) 660 WP_122954978.1 thiol:disulfide interchange protein DsbA/DsbL -
  DT070_RS08365 (DT070_08360) lptA 1751298..1751924 (+) 627 WP_122954979.1 lipopolysaccharide transport periplasmic protein LptA -
  DT070_RS08370 (DT070_08365) lptB 1751939..1752739 (+) 801 WP_194965942.1 LPS export ABC transporter ATP-binding protein -
  DT070_RS08375 (DT070_08370) rpoN/rpoN1 1752884..1754419 (+) 1536 WP_122954980.1 RNA polymerase factor sigma-54 Machinery gene
  DT070_RS08380 (DT070_08375) - 1754462..1755880 (+) 1419 WP_122954981.1 class I SAM-dependent RNA methyltransferase -
  DT070_RS08385 (DT070_08380) - 1755880..1756287 (+) 408 WP_122954982.1 putative toxin-antitoxin system toxin component, PIN family -
  DT070_RS08390 (DT070_08385) - 1756309..1757733 (-) 1425 WP_164483733.1 caspase family protein -
  DT070_RS08395 (DT070_08390) - 1757941..1759371 (-) 1431 WP_164483734.1 caspase family protein -

Sequence

Protein


Download         Length: 511 a.a.        Molecular weight: 56377.56 Da        Isoelectric Point: 4.9656

>NTDB_id=302865 DT070_RS08375 WP_122954980.1 1752884..1754419(+) (rpoN/rpoN1) [Polaromonas sp. SP1]
MKQGLSLRVSQHLALTPQLQQSIRLLQLSTLELSQEVEQMLDENPFLEVAEETAVREEFGLEHVDTPVSQDSREFESATN
SIAAGQDDTGAAGQNDAEISAEPKLEESWEGDGTVETAPDDSEWGSDAPARKNNNEESDAEASDLTGAHESLQDHLHRQS
LGLRLSEEDRAALHFLIESLNDDGYLEDSLASLAAGLAGNDLEQSEELEQRFAMALKLLHHMEPAGVGARNLAECLGLQL
LDCKDCEETRAAIAMCKQPMELLAKRDVKRLSHLCGFTEAAIKGGIAVIGRLDPKPGRRFVNVERNLIVPDVIVIKSGRG
FKVSLNGDVMPRLRVHDIYANALKQHKGQGGAALQQRLQEARWFIKNIQQRFDTILRVSSAIVERQKNFFTHGELAMRPL
VLREIADELGLHESTISRVTTAKYMGTPFGTFELKYFFGSALGTETGGNASSTAVRALIKQFVSSESLKKPLSDNQISEM
LKEQGIECARRTVAKYREALRIAPANLRKSL

Nucleotide


Download         Length: 1536 bp        

>NTDB_id=302865 DT070_RS08375 WP_122954980.1 1752884..1754419(+) (rpoN/rpoN1) [Polaromonas sp. SP1]
GTGAAACAAGGCCTCTCGCTTCGCGTCTCGCAGCATCTTGCGCTGACGCCCCAGCTGCAGCAGTCGATCCGGCTGTTGCA
GTTGTCGACGCTTGAGCTGAGCCAGGAGGTCGAGCAGATGCTTGACGAGAACCCTTTCCTGGAAGTGGCGGAAGAGACGG
CGGTGCGGGAGGAGTTCGGGCTGGAGCATGTCGACACGCCGGTCAGCCAGGACAGTCGGGAGTTTGAATCTGCTACCAAT
TCGATAGCTGCAGGCCAAGACGACACGGGGGCTGCAGGCCAAAATGATGCTGAAATCAGTGCAGAGCCCAAGCTCGAGGA
AAGCTGGGAAGGCGACGGCACGGTAGAGACCGCGCCTGACGACAGCGAGTGGGGCAGCGACGCGCCGGCGCGCAAGAACA
ACAACGAGGAAAGCGACGCCGAGGCCTCCGACCTCACGGGCGCCCACGAGTCGCTGCAAGACCACCTGCACCGCCAGTCG
CTCGGCCTGCGCCTGTCCGAAGAAGACCGCGCCGCGCTGCACTTCCTCATTGAATCGCTGAACGACGACGGCTACCTTGA
AGACAGCCTGGCATCGCTGGCCGCCGGCCTGGCCGGCAACGACCTGGAGCAAAGCGAAGAGCTCGAGCAGCGCTTTGCCA
TGGCGCTCAAGCTCCTGCACCACATGGAGCCCGCCGGCGTCGGCGCGCGCAACCTGGCCGAATGCCTGGGCCTGCAATTG
CTCGACTGCAAGGACTGCGAAGAAACCCGCGCCGCCATCGCCATGTGCAAGCAGCCCATGGAGCTGCTGGCCAAACGCGA
CGTGAAGCGCCTGTCGCACCTGTGCGGCTTCACCGAGGCTGCGATCAAGGGCGGCATTGCCGTGATCGGCCGGCTCGACC
CCAAGCCCGGCCGCCGCTTCGTGAATGTGGAGCGCAACCTGATCGTGCCCGACGTCATCGTCATCAAGTCGGGCCGGGGC
TTCAAGGTCTCGCTCAACGGCGATGTGATGCCGCGCCTGCGTGTGCACGATATTTACGCCAACGCCCTCAAGCAGCACAA
GGGCCAGGGCGGCGCGGCGCTGCAGCAGCGCCTGCAGGAAGCCCGCTGGTTCATCAAGAACATCCAGCAGCGTTTTGACA
CCATCCTGCGTGTGAGCAGCGCGATTGTCGAGCGGCAGAAAAACTTCTTCACGCACGGCGAGCTTGCCATGCGCCCGCTG
GTGCTGCGTGAAATCGCCGACGAACTGGGCCTGCATGAGTCGACCATCTCGCGCGTGACCACCGCCAAGTACATGGGCAC
GCCTTTCGGCACCTTCGAGCTCAAATACTTCTTCGGCTCCGCACTCGGCACCGAAACCGGCGGCAACGCCTCCAGCACGG
CGGTGCGCGCACTGATCAAGCAGTTCGTCTCGTCTGAAAGCCTGAAGAAGCCGCTCAGCGACAACCAGATCTCCGAAATG
CTGAAAGAGCAGGGCATTGAATGCGCGCGCCGCACAGTAGCTAAATATCGTGAGGCGCTTCGCATCGCGCCCGCCAACCT
GCGTAAATCTCTCTAG

Domains

Predicted by InterproScan.

Sigma-54, DNA binding domain (Sigma54_DBD)

(354-509)

Sigma-54 factor, core binding domain (Sigma54_CBD)

(145-339)

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

(5-49)


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

52.713

100

0.532

Multiple sequence alignment