Detailed information    

insolico Bioinformatically predicted

Overview

Name   rpoN/rpoN1   Type   Machinery gene
Locus tag   AAFX13_RS23275 Genome accession   NZ_CP155084
Coordinates   3155477..3156943 (+) Length   488 a.a.
NCBI ID   WP_005484866.1    Uniprot ID   -
Organism   Vibrio parahaemolyticus strain TBV028     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 3150477..3161943
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  AAFX13_RS23250 (AAFX13_23255) - 3151597..3152562 (+) 966 WP_005455122.1 calcium/sodium antiporter -
  AAFX13_RS23255 (AAFX13_23260) kdsD 3152599..3153570 (+) 972 WP_005484881.1 arabinose-5-phosphate isomerase KdsD -
  AAFX13_RS23260 (AAFX13_23265) lptC 3153661..3154224 (+) 564 WP_005467805.1 LPS export ABC transporter periplasmic protein LptC -
  AAFX13_RS23265 (AAFX13_23270) lptA 3154205..3154699 (+) 495 WP_069533324.1 lipopolysaccharide transport periplasmic protein LptA -
  AAFX13_RS23270 (AAFX13_23275) lptB 3154701..3155426 (+) 726 WP_005467801.1 LPS export ABC transporter ATP-binding protein -
  AAFX13_RS23275 (AAFX13_23280) rpoN/rpoN1 3155477..3156943 (+) 1467 WP_005484866.1 RNA polymerase factor sigma-54 Machinery gene
  AAFX13_RS23280 (AAFX13_23285) hpf 3156968..3157255 (+) 288 WP_005467451.1 ribosome hibernation promoting factor -
  AAFX13_RS23285 (AAFX13_23290) ptsN 3157258..3157704 (+) 447 WP_005467453.1 PTS IIA-like nitrogen regulatory protein PtsN -
  AAFX13_RS23290 (AAFX13_23295) rapZ 3157719..3158582 (+) 864 WP_005468663.1 RNase adapter RapZ -
  AAFX13_RS23295 (AAFX13_23300) - 3158585..3158860 (+) 276 WP_005468661.1 HPr family phosphocarrier protein -
  AAFX13_RS23300 (AAFX13_23305) mgtE 3159080..3160435 (+) 1356 WP_005468659.1 magnesium transporter -
  AAFX13_RS23305 (AAFX13_23310) pmbA 3160512..3161855 (-) 1344 WP_021453255.1 metalloprotease PmbA -

Sequence

Protein


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

>NTDB_id=896041 AAFX13_RS23275 WP_005484866.1 3155477..3156943(+) (rpoN/rpoN1) [Vibrio parahaemolyticus strain TBV028]
MKPSLQLKLGQQLAMTPQLQQAIRLLQLSTLDLQQEIQEALDSNPLLEVEEGHEEPQANGEDKSALETADNSANEPTEIE
VPDSSDVIEKSEISSELEIDTTWDDVYSANTGSTGLALDDDMPVYQGETTESLHDYLMWQLDLTPFSETDRTIAIAIIDA
IDDYGYLTLSPEEIHESFDNEDIELDEVEAVRKRIQQFDPLGVASRNLQECLLLQLATFPEDTPWLAEAKMILADHIDHL
GNRDYKLVIKETKLKEADLREVLKLIQQLDPRPGSRITPDDTEYVIPDVSVFKDHGKWTVSINPDSIPKLKVNQQYAQLG
KGNSADSQYIRSNLQEAKWLIKSLESRNETLLKVARCIVEHQQDFFEYGEEAMKPMVLNDVALAVDMHESTISRVTTQKF
MHTPRGIFELKYFFSSHVSTDNGGECSSTAIRALIKKLVAAENTAKPLSDSKIAALLADQGIQVARRTIAKYRESLGIAP
SSQRKRLL

Nucleotide


Download         Length: 1467 bp        

>NTDB_id=896041 AAFX13_RS23275 WP_005484866.1 3155477..3156943(+) (rpoN/rpoN1) [Vibrio parahaemolyticus strain TBV028]
ATGAAACCTTCATTACAACTCAAGCTAGGTCAACAGTTAGCCATGACGCCACAGTTGCAACAAGCGATTCGCTTGCTGCA
GTTGTCGACTCTCGATCTTCAACAAGAAATCCAAGAAGCGTTGGACTCAAACCCGCTATTGGAAGTTGAAGAAGGCCACG
AAGAACCTCAAGCAAATGGTGAAGACAAATCAGCACTCGAAACTGCTGACAACAGTGCCAACGAGCCAACAGAAATCGAA
GTTCCTGATAGTTCTGACGTCATCGAAAAATCCGAAATCAGCTCAGAGCTTGAAATCGACACAACTTGGGATGATGTCTA
CAGCGCAAATACGGGCAGTACCGGTTTAGCGTTAGACGATGATATGCCGGTCTACCAAGGCGAAACCACAGAATCGCTGC
ACGATTACTTAATGTGGCAACTCGACTTAACGCCTTTTAGTGAAACCGACCGTACGATTGCCATTGCCATCATTGATGCG
ATTGACGATTACGGCTATCTGACCCTATCTCCTGAAGAGATTCACGAAAGCTTCGACAACGAAGATATTGAGTTGGATGA
GGTCGAAGCCGTGCGCAAACGCATCCAACAGTTTGACCCGCTTGGTGTGGCATCGCGGAACCTGCAAGAATGCTTACTCC
TGCAACTTGCAACCTTCCCAGAAGACACGCCTTGGCTTGCAGAAGCCAAAATGATTCTTGCCGATCACATCGATCACCTT
GGTAATCGCGATTACAAACTGGTCATCAAAGAAACTAAGCTAAAAGAAGCGGATCTACGCGAAGTATTAAAACTGATCCA
ACAGTTAGATCCTCGTCCGGGCAGCCGCATTACCCCAGACGACACAGAATACGTCATTCCGGACGTATCGGTATTTAAAG
ATCATGGGAAATGGACCGTTTCCATCAACCCTGACAGCATTCCAAAGTTAAAAGTTAACCAACAATACGCTCAATTAGGC
AAAGGCAACAGTGCGGATAGCCAGTACATTCGCAGCAATTTGCAAGAGGCAAAATGGTTAATTAAGAGCTTAGAGAGCAG
AAACGAGACGCTACTCAAAGTTGCAAGATGTATTGTTGAACATCAACAAGATTTCTTCGAGTATGGTGAAGAAGCCATGA
AGCCAATGGTACTCAATGATGTAGCCTTGGCGGTGGACATGCATGAATCCACAATATCTCGTGTTACGACACAAAAGTTC
ATGCATACGCCACGTGGCATTTTTGAATTGAAGTACTTCTTCTCCAGCCACGTCAGTACAGACAATGGCGGAGAATGTTC
GTCAACAGCAATCCGCGCACTCATTAAGAAACTGGTCGCGGCAGAGAATACTGCTAAACCACTTAGTGACAGTAAGATTG
CTGCTCTTCTGGCTGACCAAGGGATTCAGGTCGCAAGACGTACGATAGCTAAATATCGTGAATCCTTGGGTATTGCCCCT
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