Detailed information    

insolico Bioinformatically predicted

Overview

Name   rpoN/rpoN1   Type   Machinery gene
Locus tag   ALIDE_RS20285 Genome accession   NC_014910
Coordinates   4259824..4261377 (-) Length   517 a.a.
NCBI ID   WP_013520827.1    Uniprot ID   -
Organism   Alicycliphilus denitrificans BC     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 4254824..4266377
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  ALIDE_RS20265 (Alide_4077) - 4255686..4256171 (-) 486 WP_013520823.1 putative toxin-antitoxin system toxin component, PIN family -
  ALIDE_RS20270 (Alide_4078) - 4256161..4257429 (-) 1269 WP_013520824.1 THUMP domain-containing class I SAM-dependent RNA methyltransferase -
  ALIDE_RS20275 (Alide_4079) - 4257542..4259365 (+) 1824 WP_013520825.1 methyl-accepting chemotaxis protein -
  ALIDE_RS20280 (Alide_4080) - 4259367..4259810 (-) 444 WP_013520826.1 acyl-CoA thioesterase -
  ALIDE_RS20285 (Alide_4081) rpoN/rpoN1 4259824..4261377 (-) 1554 WP_013520827.1 RNA polymerase factor sigma-54 Machinery gene
  ALIDE_RS20290 (Alide_4082) lptB 4261427..4262215 (-) 789 WP_193352857.1 LPS export ABC transporter ATP-binding protein -
  ALIDE_RS20295 (Alide_4083) lptA 4262224..4262868 (-) 645 WP_013520829.1 lipopolysaccharide transport periplasmic protein LptA -
  ALIDE_RS20300 (Alide_4084) - 4262988..4263644 (-) 657 WP_013520830.1 thiol:disulfide interchange protein DsbA/DsbL -
  ALIDE_RS20305 (Alide_4085) - 4263724..4264359 (-) 636 WP_013520831.1 SPOR domain-containing protein -
  ALIDE_RS20310 (Alide_4086) argS 4264372..4266075 (-) 1704 WP_013520832.1 arginine--tRNA ligase -

Sequence

Protein


Download         Length: 517 a.a.        Molecular weight: 56310.24 Da        Isoelectric Point: 4.5340

>NTDB_id=39348 ALIDE_RS20285 WP_013520827.1 4259824..4261377(-) (rpoN/rpoN1) [Alicycliphilus denitrificans BC]
MKPSLSLRVSQHLALTPQLQQSIRLLQLSTLELAQEVEQMLDENPFLERTVDDASLDEPVAPPSDEGGRRAEDATPSGAA
DADWTGDEGQNDAQMPDIAAPTDWDGDTDIPGDDREWGSDAPASAGSGSGDGDEADAADLAHGHESLADHLERQALALRL
SELDMAALRFLIGSLNDDGYLDEPLESLAASLADTDDPEQLDELVHRLTVALRLLQSLDPAGVGARGLAECLALQLQALD
REEEGDPEVIQAALCICRQPLDLLARRDVRRLAQACAASDDLTRAAMALIARLEPRPGRRFADVERNVIVPDVIVRKIGR
GAQQSFSVRLNPDVMPRLRVHDVYANALRGGSKGDGHQALQARLQEARWFIKNIQQRFDTILRVSSAIVERQKNFFVHGE
LAMRPLVLREIADELGLHESTISRVTTAKYMATPQGTFELKYFFGSGLGTETGGSASSTAVRALIRQFVAAEDPHKPLSD
GQIADMLKEQGIECARRTVAKYREALKIAPANLRKAL

Nucleotide


Download         Length: 1554 bp        

>NTDB_id=39348 ALIDE_RS20285 WP_013520827.1 4259824..4261377(-) (rpoN/rpoN1) [Alicycliphilus denitrificans BC]
ATGAAGCCCAGCCTGTCGCTGCGCGTCTCGCAGCACCTGGCGCTCACGCCGCAGCTGCAGCAGTCCATCCGCCTGCTGCA
GCTGTCCACGCTGGAGCTGGCGCAGGAGGTCGAGCAGATGCTCGACGAGAACCCCTTCCTGGAGCGCACGGTGGACGACG
CGTCGCTGGATGAGCCGGTCGCACCCCCGTCGGACGAGGGCGGCCGCCGGGCCGAGGATGCTACGCCTTCAGGAGCTGCT
GACGCAGATTGGACGGGCGATGAGGGCCAAAACGATGCTCAAATGCCCGATATCGCCGCTCCCACCGACTGGGACGGCGA
CACCGACATACCGGGCGACGACCGCGAGTGGGGCAGCGATGCGCCCGCAAGCGCCGGCAGCGGCTCTGGCGATGGCGACG
AGGCCGACGCCGCGGACCTGGCGCACGGCCACGAATCGCTCGCAGACCACCTTGAGCGCCAGGCCCTGGCGCTGCGCCTG
TCCGAGCTGGACATGGCGGCGCTGCGCTTTCTCATCGGCTCGCTCAACGACGACGGCTATCTGGACGAGCCGCTCGAATC
CCTGGCCGCGAGCCTGGCGGACACGGACGACCCCGAGCAGCTCGATGAGCTGGTGCACCGCCTGACCGTGGCTCTGCGCC
TGCTGCAGAGCCTGGACCCCGCGGGCGTGGGCGCGCGCGGCCTGGCCGAATGCCTGGCGTTGCAGCTGCAGGCGCTGGAC
CGGGAGGAGGAGGGCGACCCCGAGGTGATCCAGGCCGCGCTGTGCATCTGCCGCCAGCCGCTCGACCTGCTGGCGCGGCG
CGACGTGCGCCGCCTGGCCCAGGCCTGCGCCGCGAGCGACGACCTCACGCGCGCCGCCATGGCGCTGATCGCGCGGCTGG
AGCCGCGCCCCGGGCGGCGCTTCGCCGACGTGGAGCGCAACGTCATCGTGCCCGACGTGATCGTCAGGAAGATCGGGCGC
GGCGCGCAGCAGAGCTTCAGCGTCCGCCTCAACCCCGACGTGATGCCGCGCCTGCGCGTGCACGACGTCTACGCCAACGC
CCTGCGCGGCGGCAGCAAGGGCGACGGCCACCAGGCGCTGCAGGCCAGGCTGCAGGAGGCGCGCTGGTTCATCAAGAACA
TACAGCAGCGCTTCGACACCATCCTGCGCGTGTCCAGCGCCATCGTGGAGCGGCAGAAGAACTTCTTCGTGCATGGCGAG
CTGGCCATGCGCCCGCTGGTGCTGCGCGAGATCGCCGACGAGCTCGGCCTGCACGAATCCACCATCAGCCGCGTGACCAC
GGCCAAGTACATGGCCACGCCCCAGGGCACGTTCGAGCTCAAGTACTTCTTCGGCTCGGGCCTGGGCACCGAGACCGGCG
GCAGCGCGTCGAGCACGGCGGTGCGCGCGCTCATCCGGCAGTTCGTCGCCGCCGAGGATCCGCACAAGCCGCTGTCGGAC
GGCCAGATCGCCGACATGCTCAAGGAGCAGGGCATAGAGTGCGCGCGCCGCACCGTGGCCAAGTACCGAGAGGCGCTGAA
GATCGCGCCCGCCAACCTGCGCAAGGCGCTATAG

Domains

Predicted by InterproScan.

Sigma-54 factor, core binding domain (Sigma54_CBD)

(139-344)

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

(4-48)

Sigma-54, DNA binding domain (Sigma54_DBD)

(359-515)


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

52.805

100

0.528

Multiple sequence alignment