Detailed information    

insolico Bioinformatically predicted

Overview

Name   rpoN/rpoN1   Type   Machinery gene
Locus tag   RHS38_RS02035 Genome accession   NZ_CP133891
Coordinates   435789..437255 (-) Length   488 a.a.
NCBI ID   WP_005484866.1    Uniprot ID   -
Organism   Vibrio parahaemolyticus strain M0904     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 430789..442255
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  RHS38_RS02005 (RHS38_02005) pmbA 430877..432220 (+) 1344 WP_005459755.1 metalloprotease PmbA -
  RHS38_RS02010 (RHS38_02010) mgtE 432297..433652 (-) 1356 WP_005468659.1 magnesium transporter -
  RHS38_RS02015 (RHS38_02015) - 433872..434147 (-) 276 WP_005468661.1 HPr family phosphocarrier protein -
  RHS38_RS02020 (RHS38_02020) rapZ 434150..435013 (-) 864 WP_005468663.1 RNase adapter RapZ -
  RHS38_RS02025 (RHS38_02025) ptsN 435028..435474 (-) 447 WP_005467453.1 PTS IIA-like nitrogen regulatory protein PtsN -
  RHS38_RS02030 (RHS38_02030) hpf 435477..435764 (-) 288 WP_005467451.1 ribosome hibernation promoting factor -
  RHS38_RS02035 (RHS38_02035) rpoN/rpoN1 435789..437255 (-) 1467 WP_005484866.1 RNA polymerase factor sigma-54 Machinery gene
  RHS38_RS02040 (RHS38_02040) lptB 437306..438031 (-) 726 WP_005467801.1 LPS export ABC transporter ATP-binding protein -
  RHS38_RS02045 (RHS38_02045) lptA 438033..438527 (-) 495 WP_005467803.1 lipopolysaccharide transport periplasmic protein LptA -
  RHS38_RS02050 (RHS38_02050) lptC 438508..439071 (-) 564 WP_005467805.1 LPS export ABC transporter periplasmic protein LptC -
  RHS38_RS02055 (RHS38_02055) kdsD 439162..440133 (-) 972 WP_005484881.1 arabinose-5-phosphate isomerase KdsD -
  RHS38_RS02060 (RHS38_02060) - 440170..441135 (-) 966 WP_005455122.1 calcium/sodium antiporter -

Sequence

Protein


Download         Length: 488 a.a.        Molecular weight: 54838.66 Da        Isoelectric Point: 4.3441

>NTDB_id=801296 RHS38_RS02035 WP_005484866.1 435789..437255(-) (rpoN/rpoN1) [Vibrio parahaemolyticus strain M0904]
MKPSLQLKLGQQLAMTPQLQQAIRLLQLSTLDLQQEIQEALDSNPLLEVEEGHEEPQANGEDKSALETADNSANEPTEIE
VPDSSDVIEKSEISSELEIDTTWDDVYSANTGSTGLALDDDMPVYQGETTESLHDYLMWQLDLTPFSETDRTIAIAIIDA
IDDYGYLTLSPEEIHESFDNEDIELDEVEAVRKRIQQFDPLGVASRNLQECLLLQLATFPEDTPWLAEAKMILADHIDHL
GNRDYKLVIKETKLKEADLREVLKLIQQLDPRPGSRITPDDTEYVIPDVSVFKDHGKWTVSINPDSIPKLKVNQQYAQLG
KGNSADSQYIRSNLQEAKWLIKSLESRNETLLKVARCIVEHQQDFFEYGEEAMKPMVLNDVALAVDMHESTISRVTTQKF
MHTPRGIFELKYFFSSHVSTDNGGECSSTAIRALIKKLVAAENTAKPLSDSKIAALLADQGIQVARRTIAKYRESLGIAP
SSQRKRLL

Nucleotide


Download         Length: 1467 bp        

>NTDB_id=801296 RHS38_RS02035 WP_005484866.1 435789..437255(-) (rpoN/rpoN1) [Vibrio parahaemolyticus strain M0904]
ATGAAACCTTCATTACAACTCAAGCTAGGTCAACAGTTAGCCATGACGCCACAGTTGCAACAAGCGATTCGCTTGCTGCA
GTTGTCGACTCTCGATCTTCAACAAGAAATCCAAGAAGCGTTGGACTCAAACCCACTATTGGAAGTTGAAGAAGGCCACG
AAGAACCTCAAGCAAATGGTGAAGACAAATCAGCACTCGAAACTGCTGACAACAGTGCCAACGAGCCAACAGAAATCGAA
GTTCCTGATAGTTCTGACGTCATCGAAAAGTCCGAAATCAGCTCAGAGCTTGAAATCGACACAACTTGGGATGATGTCTA
CAGCGCAAATACGGGCAGTACCGGTTTAGCGTTAGACGATGATATGCCGGTCTACCAAGGCGAAACCACAGAATCGCTGC
ACGATTACCTGATGTGGCAGCTCGACTTAACGCCTTTCAGTGAAACCGACCGTACGATTGCCATTGCCATCATTGATGCG
ATTGACGATTACGGCTATCTGACCCTATCTCCTGAAGAGATTCACGAAAGCTTCGACAACGAAGATATTGAGTTGGATGA
AGTCGAAGCCGTGCGCAAACGCATCCAACAGTTTGACCCGCTTGGTGTGGCATCGCGGAACCTGCAAGAATGCTTACTCC
TGCAACTTGCAACCTTCCCAGAAGACACGCCTTGGCTTGCAGAAGCCAAAATGATTCTTGCCGATCACATCGATCACCTT
GGTAATCGCGATTACAAACTGGTCATCAAAGAAACTAAGCTAAAAGAAGCGGATCTACGCGAAGTATTAAAACTGATCCA
ACAGTTAGATCCTCGTCCGGGCAGCCGCATTACCCCAGACGACACAGAATACGTCATTCCGGACGTATCGGTATTTAAAG
ATCATGGGAAATGGACCGTTTCCATCAACCCTGACAGCATTCCAAAGTTAAAAGTTAACCAACAATACGCTCAATTAGGC
AAAGGCAACAGTGCGGATAGCCAGTACATTCGCAGCAATTTGCAAGAGGCAAAATGGTTAATTAAGAGCTTAGAGAGCAG
AAACGAGACGCTACTCAAAGTTGCAAGATGTATTGTTGAACATCAACAAGATTTCTTCGAGTATGGTGAAGAAGCCATGA
AGCCAATGGTACTCAATGATGTAGCCTTGGCGGTGGACATGCATGAATCCACAATATCTCGTGTTACGACACAAAAGTTC
ATGCATACGCCACGTGGCATTTTTGAATTGAAGTACTTCTTCTCCAGCCACGTCAGTACAGACAATGGCGGAGAATGTTC
GTCAACAGCAATCCGCGCACTCATTAAGAAACTGGTCGCGGCAGAGAATACTGCTAAACCACTTAGTGACAGTAAGATTG
CTGCTCTTCTGGCTGACCAAGGGATTCAGGTCGCAAGACGTACGATAGCTAAATATCGAGAATCCTTGGGTATTGCCCCT
TCAAGTCAGCGTAAACGCCTACTTTAA

Domains

Predicted by InterProScan.

Sigma-54, DNA binding domain (Sigma54_DBD)

(328-486)

Sigma-54 factor, core binding domain (Sigma54_CBD)

(129-316)

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

(4-49)


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

44.444

100

0.459