Detailed information    

insolico Bioinformatically predicted

Overview

Name   rpoN/rpoN1   Type   Machinery gene
Locus tag   GSR16_RS16290 Genome accession   NZ_CP047241
Coordinates   3555404..3556825 (+) Length   473 a.a.
NCBI ID   WP_159879216.1    Uniprot ID   -
Organism   Aquitalea denitrificans strain 5YN1-3     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 3550404..3561825
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  GSR16_RS16265 - 3552048..3553028 (+) 981 WP_159879206.1 KpsF/GutQ family sugar-phosphate isomerase -
  GSR16_RS16270 - 3553047..3553571 (+) 525 WP_159879208.1 KdsC family phosphatase -
  GSR16_RS16275 lptC 3553568..3554128 (+) 561 WP_159879210.1 LPS export ABC transporter periplasmic protein LptC -
  GSR16_RS16280 lptA 3554118..3554672 (+) 555 WP_159879212.1 lipopolysaccharide transport periplasmic protein LptA -
  GSR16_RS16285 lptB 3554669..3555400 (+) 732 WP_159879214.1 LPS export ABC transporter ATP-binding protein -
  GSR16_RS16290 rpoN/rpoN1 3555404..3556825 (+) 1422 WP_159879216.1 RNA polymerase factor sigma-54 Machinery gene
  GSR16_RS16295 hpf 3556897..3557220 (+) 324 WP_159879218.1 ribosome hibernation-promoting factor, HPF/YfiA family -
  GSR16_RS16300 ptsN 3557341..3557805 (+) 465 WP_159879220.1 PTS IIA-like nitrogen regulatory protein PtsN -
  GSR16_RS16305 hprK 3557798..3558754 (+) 957 WP_089084016.1 HPr(Ser) kinase/phosphatase -
  GSR16_RS16310 rapZ 3558735..3559577 (+) 843 WP_159879222.1 RNase adapter RapZ -
  GSR16_RS16315 - 3559664..3560284 (+) 621 WP_159879224.1 flavin prenyltransferase UbiX -
  GSR16_RS16320 - 3560288..3561751 (+) 1464 WP_159879226.1 NAD(P)H-hydrate dehydratase -

Sequence

Protein


Download         Length: 473 a.a.        Molecular weight: 52511.44 Da        Isoelectric Point: 4.7925

>NTDB_id=411794 GSR16_RS16290 WP_159879216.1 3555404..3556825(+) (rpoN/rpoN1) [Aquitalea denitrificans strain 5YN1-3]
MKQSLQLRVSQQLTLTPQLQQSIKLLQLSTLDLQTEVERFLLDNPMLERGDDLPAQEGPATESASSNEESTTPTSDSSDN
DSHSESSGELTDWGSGSRRNDGDDEFDPMLNVPCPVSLRQHLLAQLGELTLPTRDQAIVQLLIEELDDNGFLTIDMEELA
SNLPLELELECDELMVGLRLLQQFDPAGIAARSLAESLSLQLARLPHQEPGHALACKIVAEHLSLLGNRDYTRLKRILGA
DDEAIRQAQQLIARLTPHPAAGFGGEDVHYVIPDVTVRKRRGHWVAELNNGAVPRLRVNQLYAQMLSENRSAAGELTGRL
QEAKWLVKNIQQRFDTILKVSEAIVERQQAFFEHGEVAMRPLILRDIADELGLHESTVSRVTTQKYLLCPRGLFELKYFF
GSALETDSGGECSATAIKAHIRRMIDGENTAKPLSDSAIADELGKQGIQVARRTVAKYREAMQIPPVNLRKAL

Nucleotide


Download         Length: 1422 bp        

>NTDB_id=411794 GSR16_RS16290 WP_159879216.1 3555404..3556825(+) (rpoN/rpoN1) [Aquitalea denitrificans strain 5YN1-3]
ATGAAACAGTCATTACAGCTCCGGGTTTCACAGCAACTCACCCTCACTCCACAACTGCAGCAGTCGATCAAGCTGCTGCA
GCTGTCCACGCTTGACCTGCAAACCGAGGTAGAGCGCTTCCTGCTGGACAACCCCATGCTGGAACGCGGCGACGACCTGC
CCGCGCAGGAAGGCCCCGCCACCGAGTCCGCCAGCAGCAACGAAGAATCAACCACCCCCACATCCGACAGCAGCGACAAT
GACAGCCACAGCGAAAGCAGCGGCGAGCTGACCGACTGGGGCAGTGGCAGCCGGCGCAACGACGGTGACGATGAGTTCGA
CCCCATGCTGAATGTCCCCTGCCCGGTCAGCCTGCGCCAACATCTGCTGGCCCAGTTGGGGGAGCTGACGCTGCCCACCA
GGGATCAGGCCATCGTACAGCTGCTGATTGAAGAACTGGACGATAACGGCTTTCTCACCATCGACATGGAAGAACTGGCC
AGCAATCTGCCGCTGGAACTGGAACTGGAATGCGACGAACTGATGGTTGGCCTGCGCCTGCTGCAGCAGTTCGACCCTGC
AGGCATTGCCGCACGCAGCCTTGCCGAATCACTCAGCCTGCAGCTGGCTCGCCTGCCGCACCAAGAGCCTGGCCATGCCC
TGGCATGCAAGATCGTGGCAGAGCACCTCAGCTTGCTCGGCAATCGGGACTACACCCGCCTCAAGCGCATACTGGGCGCG
GATGACGAAGCCATCCGCCAGGCACAGCAACTGATCGCCCGACTGACTCCCCACCCCGCCGCCGGTTTCGGCGGCGAAGA
CGTGCACTATGTCATCCCGGACGTCACCGTACGCAAACGCCGCGGTCACTGGGTGGCCGAACTCAATAACGGGGCGGTAC
CGCGCTTGCGCGTCAACCAGCTGTACGCCCAGATGCTGTCGGAAAACCGCAGCGCAGCAGGCGAACTGACCGGTCGCCTG
CAAGAAGCCAAGTGGCTGGTCAAGAACATCCAGCAACGATTTGACACCATTCTGAAAGTGTCAGAAGCTATAGTCGAAAG
GCAACAAGCGTTCTTTGAACACGGTGAAGTGGCCATGCGCCCGCTTATCCTGCGTGACATTGCAGACGAGCTGGGATTGC
ATGAATCCACGGTGTCACGCGTCACCACCCAGAAATACCTGCTCTGCCCTCGCGGCCTGTTCGAACTGAAATACTTTTTC
GGCAGCGCACTGGAAACCGACAGCGGCGGCGAATGCTCAGCCACCGCCATCAAGGCCCATATCCGTCGCATGATCGATGG
TGAGAACACAGCCAAGCCGCTTTCGGACAGCGCCATTGCCGACGAACTGGGCAAGCAAGGGATACAGGTTGCAAGACGCA
CCGTTGCGAAGTATCGTGAAGCTATGCAGATACCGCCGGTCAATCTGCGCAAGGCACTGTAA

Domains

Predicted by InterproScan.

Sigma-54 factor, core binding domain (Sigma54_CBD)

(116-302)

Sigma-54, DNA binding domain (Sigma54_DBD)

(317-471)

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

(4-48)


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

52.495

100

0.556

Multiple sequence alignment