Detailed information    

insolico Bioinformatically predicted

Overview

Name   rpoN/rpoN1   Type   Machinery gene
Locus tag   U0029_RS00320 Genome accession   NZ_CP139969
Coordinates   74715..76136 (+) Length   473 a.a.
NCBI ID   WP_114852117.1    Uniprot ID   -
Organism   Bordetella avium strain HAMBI_2160     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 69715..81136
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  U0029_RS00305 (U0029_00305) - 70646..71935 (+) 1290 WP_114852118.1 amidase -
  U0029_RS00310 (U0029_00310) leuA 72015..73724 (-) 1710 WP_012418988.1 2-isopropylmalate synthase -
  U0029_RS00315 (U0029_00315) - 74081..74716 (-) 636 WP_012418987.1 hypothetical protein -
  U0029_RS00320 (U0029_00320) rpoN/rpoN1 74715..76136 (+) 1422 WP_114852117.1 RNA polymerase factor sigma-54 Machinery gene
  U0029_RS00325 (U0029_00325) - 76197..76493 (-) 297 WP_012418985.1 bacterioferritin-associated ferredoxin -
  U0029_RS00330 (U0029_00330) bfr 77001..77477 (+) 477 WP_012418984.1 bacterioferritin -
  U0029_RS00335 (U0029_00335) - 77550..78215 (-) 666 WP_012418983.1 hypothetical protein -
  U0029_RS00340 (U0029_00340) - 78252..79859 (-) 1608 WP_012418982.1 peptide chain release factor 3 -
  U0029_RS00345 (U0029_00345) - 79885..80514 (-) 630 WP_012418981.1 LysE family transporter -

Sequence

Protein


Download         Length: 473 a.a.        Molecular weight: 52213.68 Da        Isoelectric Point: 4.8049

>NTDB_id=912076 U0029_RS00320 WP_114852117.1 74715..76136(+) (rpoN/rpoN1) [Bordetella avium strain HAMBI_2160]
MQNIVPMTRPALELRPGQHLTLTPQLQQSIRLLQLSSLELEAEISLALADNPLLERDENPAEQVDSQREASIESDDSSPE
IETRLEEMPGSGGVYPDEDEPQQARADTLREHLLGQLALTRAGPRDAALVEVLIEELDDNGYLGSPLVEILQWLPPELEI
DEDELRVALSLLQSFDPPGIGARDMADCLLLQLRQPDLTRLPEAANPVILRCAREICVQHLSLLASGNLARLRDVLGVDE
PTLRTAHSLIVRLEPRPGRAWTVPAAEYALPDVLVSKTRQGWQAVLNSAAMPRLQINGLYAQMLANQRETAYAGLSAQLQ
QARWMIRNIEQRFDTILRVSQAIVMHQAAFFSEGPAAMRPLILKDIAAELGLHESTISRATTQKYMLTPFGTLELKYFFG
TGLATDSGNAASATAVQAHIRKMVSEENRAKPLSDSQIMERLASQGIVIARRTVAKYREALRIAPAAVRKAQG

Nucleotide


Download         Length: 1422 bp        

>NTDB_id=912076 U0029_RS00320 WP_114852117.1 74715..76136(+) (rpoN/rpoN1) [Bordetella avium strain HAMBI_2160]
ATGCAAAATATTGTACCTATGACTCGTCCTGCTCTAGAACTTCGGCCTGGTCAGCATTTAACTTTGACCCCGCAACTGCA
ACAGTCGATCCGGCTCTTGCAGCTATCCTCATTGGAGCTGGAGGCGGAAATCTCCCTGGCCTTGGCCGACAATCCGTTGC
TGGAGCGCGACGAAAATCCGGCCGAACAGGTGGACTCGCAGCGCGAGGCAAGCATCGAAAGTGATGATTCCTCACCTGAA
ATCGAGACGCGTCTGGAAGAAATGCCGGGTTCGGGCGGCGTCTATCCAGACGAAGATGAGCCGCAACAGGCCCGCGCCGA
CACGCTGCGTGAGCATTTGCTGGGCCAACTGGCGCTGACCCGCGCCGGGCCGCGCGACGCGGCATTGGTTGAGGTGCTCA
TCGAGGAGCTGGACGACAACGGCTATCTGGGCTCGCCGCTGGTGGAAATCTTGCAGTGGCTGCCGCCGGAGCTGGAGATC
GATGAAGACGAGTTGCGTGTCGCTTTGAGCCTGTTGCAGTCTTTCGACCCGCCGGGCATCGGCGCCCGCGATATGGCGGA
CTGTCTGTTGCTGCAATTGCGCCAACCCGATCTGACTCGTTTGCCCGAAGCCGCCAACCCTGTCATCTTGCGTTGTGCGC
GCGAGATCTGCGTGCAGCATCTGTCCTTGCTGGCCTCAGGCAATTTGGCGCGCCTGCGTGACGTGCTGGGGGTGGACGAA
CCGACCTTGCGCACCGCCCACAGCCTTATCGTGCGCCTAGAGCCCCGACCCGGTCGGGCCTGGACCGTCCCGGCGGCCGA
GTATGCGCTGCCTGACGTGCTGGTGAGCAAAACGCGGCAGGGCTGGCAGGCCGTGCTCAATAGCGCCGCCATGCCCCGGC
TACAGATCAATGGGTTGTATGCGCAAATGTTGGCTAACCAGCGAGAAACGGCCTATGCGGGCCTGAGCGCACAGTTGCAG
CAGGCACGCTGGATGATCCGCAATATCGAACAACGATTCGACACGATTCTGCGCGTGTCGCAGGCCATTGTGATGCATCA
GGCGGCGTTTTTCAGTGAAGGTCCGGCTGCCATGCGTCCGCTCATTCTCAAAGACATTGCAGCTGAGTTGGGTTTGCACG
AATCCACGATTTCACGCGCCACAACACAGAAGTACATGCTCACTCCGTTCGGTACGCTGGAGCTCAAATATTTCTTCGGG
ACCGGTCTTGCCACGGATAGCGGGAATGCGGCTTCTGCCACCGCTGTGCAGGCGCATATCCGCAAGATGGTGTCAGAGGA
AAACCGCGCCAAGCCGCTATCTGATAGCCAGATCATGGAGCGATTGGCCAGTCAGGGCATCGTGATTGCCCGGCGTACCG
TGGCCAAGTACCGGGAAGCCTTGCGCATTGCGCCGGCGGCGGTGCGTAAGGCGCAGGGCTGA

Domains

Predicted by InterproScan.

Sigma-54, DNA binding domain (Sigma54_DBD)

(315-470)

Sigma-54 factor, core binding domain (Sigma54_CBD)

(101-300)

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

(12-55)


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

48.915

100

0.524