Detailed information    

insolico Bioinformatically predicted

Overview

Name   rpoN/rpoN1   Type   Machinery gene
Locus tag   WJM28_RS18895 Genome accession   NZ_CP149125
Coordinates   4085034..4086473 (-) Length   479 a.a.
NCBI ID   WP_039040474.1    Uniprot ID   -
Organism   Aeromonas caviae strain BE3     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 4080034..4091473
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  WJM28_RS18865 - 4080313..4081053 (+) 741 WP_182976118.1 KDGP aldolase family protein -
  WJM28_RS18870 - 4081157..4083061 (+) 1905 WP_339331832.1 HTH domain-containing protein -
  WJM28_RS18875 npr 4083077..4083349 (-) 273 WP_010675868.1 PTS phosphocarrier protein NPr -
  WJM28_RS18880 rapZ 4083370..4084236 (-) 867 WP_010675869.1 RNase adapter RapZ -
  WJM28_RS18885 ptsN 4084277..4084723 (-) 447 WP_010675870.1 PTS IIA-like nitrogen regulatory protein PtsN -
  WJM28_RS18890 hpf 4084726..4085013 (-) 288 WP_005305957.1 ribosome hibernation promoting factor -
  WJM28_RS18895 rpoN/rpoN1 4085034..4086473 (-) 1440 WP_039040474.1 RNA polymerase factor sigma-54 Machinery gene
  WJM28_RS18900 lptB 4086539..4087264 (-) 726 WP_010675872.1 LPS export ABC transporter ATP-binding protein -
  WJM28_RS18905 lptA 4087277..4087795 (-) 519 WP_010675873.1 lipopolysaccharide transport periplasmic protein LptA -
  WJM28_RS18910 lptC 4087782..4088342 (-) 561 WP_039040473.1 LPS export ABC transporter periplasmic protein LptC -
  WJM28_RS18915 kdsC 4088339..4088893 (-) 555 WP_042864828.1 3-deoxy-manno-octulosonate-8-phosphatase KdsC -
  WJM28_RS18920 - 4088893..4089888 (-) 996 WP_029314845.1 KpsF/GutQ family sugar-phosphate isomerase -
  WJM28_RS18925 mlaF 4090095..4090895 (+) 801 WP_029314846.1 phospholipid ABC transporter ATP-binding protein MlaF -

Sequence

Protein


Download         Length: 479 a.a.        Molecular weight: 53761.57 Da        Isoelectric Point: 4.3728

>NTDB_id=956695 WJM28_RS18895 WP_039040474.1 4085034..4086473(-) (rpoN/rpoN1) [Aeromonas caviae strain BE3]
MKPTLQLRLGQSLTMTPQLQQAIRLLQLSTLELQQEIQQALDNNPLLEQEENEAQETSQTETQDASQLDSSDAMAQESMP
DELPVDTTWDEVYSAGTAQSAGPIHDGEDSVYQGETTENLQDYLLWQMRLTPFSDVDAAIALAIIDAIDESGYLTATLED
IQAAVSSEEVEVELDEIEAVLKRVQHFDPVGIAARSVQECLLIQLGQYSPDLPWLDEAREVIREHMDLLGNRDYRTLARK
TRLKESDLKEVLDLIQQLEPRPGNGIIQSESQYVIPDVSVVKKGSKWVVELNPDSAPRIRVNEAYAAMARNARSSTDTQF
IRSHLQEAKWFIKSLESRNDTLLKVASCIVEQQQGFFEYGEEAMKPMVLNDIAEAVEMHESTISRVTTQKYMHTPRGIFE
LKFFFSSHVNTEGGGECSSTAIRALIKKLVTAENPAKPLSDSKIADLLAEQGIMVARRTIAKYRESLLIPPSNQRKRLV

Nucleotide


Download         Length: 1440 bp        

>NTDB_id=956695 WJM28_RS18895 WP_039040474.1 4085034..4086473(-) (rpoN/rpoN1) [Aeromonas caviae strain BE3]
ATGAAGCCGACATTACAGTTGCGTCTCGGTCAGTCCCTGACCATGACGCCACAATTACAACAAGCGATTCGTCTGCTCCA
GCTCTCCACCCTGGAACTCCAGCAGGAAATTCAGCAAGCGCTCGACAACAACCCTTTGCTGGAGCAAGAGGAGAACGAGG
CGCAGGAAACCAGTCAGACAGAGACACAGGACGCCAGTCAACTCGACTCCAGCGATGCCATGGCCCAGGAGAGCATGCCG
GATGAACTGCCGGTGGACACCACCTGGGACGAGGTCTACTCGGCCGGTACGGCCCAGAGTGCAGGCCCCATCCATGACGG
GGAAGACAGCGTCTATCAGGGGGAGACCACCGAGAATCTGCAGGACTACCTGCTGTGGCAGATGCGGCTCACCCCGTTCA
GTGATGTGGATGCTGCCATCGCGCTTGCCATCATCGATGCCATCGACGAATCCGGGTATCTGACTGCCACCCTCGAGGAT
ATTCAGGCTGCAGTCAGCAGCGAGGAGGTAGAAGTCGAACTGGATGAGATAGAAGCCGTGCTCAAGCGGGTGCAGCATTT
CGATCCGGTCGGCATCGCCGCCCGTTCGGTGCAAGAGTGTCTGCTGATCCAGCTCGGCCAGTATTCGCCGGACCTGCCCT
GGCTCGACGAAGCCAGAGAGGTGATCCGCGAACACATGGACCTGCTCGGCAATCGCGACTACCGCACCCTGGCTCGCAAG
ACCCGCCTCAAGGAGAGCGATCTCAAGGAGGTGCTGGATCTCATCCAGCAACTAGAGCCCAGACCCGGCAACGGCATCAT
CCAGAGTGAATCCCAGTACGTGATCCCGGATGTGTCCGTGGTCAAGAAGGGTAGCAAGTGGGTGGTTGAACTCAATCCGG
ATTCTGCTCCGCGCATCCGTGTCAACGAGGCCTATGCGGCCATGGCGCGCAATGCCCGCAGCAGCACGGATACCCAGTTC
ATCCGTTCTCATTTGCAGGAGGCCAAGTGGTTCATCAAGAGCCTGGAGAGTCGTAACGACACCCTGCTCAAGGTGGCCAG
CTGCATCGTCGAGCAGCAGCAGGGCTTTTTCGAGTACGGCGAAGAGGCCATGAAACCCATGGTACTCAACGACATCGCGG
AAGCGGTGGAGATGCATGAGTCGACCATTTCACGGGTCACGACCCAGAAGTACATGCATACGCCCCGCGGCATTTTTGAA
CTGAAGTTTTTTTTCTCCAGTCACGTCAATACGGAGGGAGGAGGAGAGTGCTCATCGACCGCTATTCGCGCCCTGATCAA
GAAGCTGGTGACGGCGGAAAACCCCGCCAAGCCGCTTAGTGATAGCAAGATCGCGGATTTGCTGGCCGAACAGGGTATTA
TGGTGGCGAGACGCACGATCGCAAAGTACCGTGAATCCTTGTTGATCCCGCCATCCAATCAGCGCAAACGCCTGGTTTAG

Domains

Predicted by InterproScan.

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

(5-48)

Sigma-54, DNA binding domain (Sigma54_DBD)

(319-477)

Sigma-54 factor, core binding domain (Sigma54_CBD)

(116-305)


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

45.472

100

0.482