Detailed information    

insolico Bioinformatically predicted

Overview

Name   rpoN/rpoN1   Type   Machinery gene
Locus tag   R1T29_RS02160 Genome accession   NZ_CP136903
Coordinates   458596..460062 (-) Length   488 a.a.
NCBI ID   WP_005497310.1    Uniprot ID   -
Organism   Vibrio parahaemolyticus strain X1     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 453596..465062
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  R1T29_RS02130 (R1T29_02130) pmbA 453685..455028 (+) 1344 WP_025555695.1 metalloprotease PmbA -
  R1T29_RS02135 (R1T29_02135) mgtE 455104..456459 (-) 1356 WP_005468659.1 magnesium transporter -
  R1T29_RS02140 (R1T29_02140) - 456679..456954 (-) 276 WP_005468661.1 HPr family phosphocarrier protein -
  R1T29_RS02145 (R1T29_02145) rapZ 456957..457820 (-) 864 WP_005468663.1 RNase adapter RapZ -
  R1T29_RS02150 (R1T29_02150) ptsN 457835..458281 (-) 447 WP_005467453.1 PTS IIA-like nitrogen regulatory protein PtsN -
  R1T29_RS02155 (R1T29_02155) hpf 458284..458571 (-) 288 WP_005467451.1 ribosome hibernation promoting factor -
  R1T29_RS02160 (R1T29_02160) rpoN/rpoN1 458596..460062 (-) 1467 WP_005497310.1 RNA polymerase factor sigma-54 Machinery gene
  R1T29_RS02165 (R1T29_02165) lptB 460113..460838 (-) 726 WP_005467801.1 LPS export ABC transporter ATP-binding protein -
  R1T29_RS02170 (R1T29_02170) lptA 460840..461334 (-) 495 WP_005467803.1 lipopolysaccharide transport periplasmic protein LptA -
  R1T29_RS02175 (R1T29_02175) lptC 461315..461878 (-) 564 WP_005467805.1 LPS export ABC transporter periplasmic protein LptC -
  R1T29_RS02180 (R1T29_02180) kdsD 461969..462940 (-) 972 WP_005484881.1 arabinose-5-phosphate isomerase KdsD -
  R1T29_RS02185 (R1T29_02185) - 462977..463942 (-) 966 WP_005455122.1 calcium/sodium antiporter -

Sequence

Protein


Download         Length: 488 a.a.        Molecular weight: 54809.62 Da        Isoelectric Point: 4.3378

>NTDB_id=816111 R1T29_RS02160 WP_005497310.1 458596..460062(-) (rpoN/rpoN1) [Vibrio parahaemolyticus strain X1]
MKPSLQLKLGQQLAMTPQLQQAIRLLQLSTLDLQQEIQEALDSNPLLEVEEGHEEPQANGEDKSALETADNSANEPTEIE
VPDSSDVIEKSEISSELEIDTTWDDVYSANTGSTGLALDDDMPVYQGETTESLHDYLMWQLDLTPFSETDRTIAIAIIDA
IDDYGYLTLSPEEIHESFNNEDIELDEVEAVRKRIQQFDPLGVASQNLQECLLLQLATFPEDTPWLAEAKMILADHIDHL
GNRDYKLVIKETKLKEADLREVLKLIQQLDPRPGSRITPDDTEYVIPDVSVFKDHGKWTVSINPDSIPKLKVNQQYAQLG
KGNSADSQYIRSNLQEAKWLIKSLESRNETLLKVARCIVEHQQDFFEYGEEAMKPMVLNDVALAVDMHESTISRVTTQKF
MHTPRGIFELKYFFSSHVSTDNGGECSSTAIRALIKKLVAAENTAKPLSDSKIAALLADQGIQVARRTIAKYRESLGIAP
SSQRKRLL

Nucleotide


Download         Length: 1467 bp        

>NTDB_id=816111 R1T29_RS02160 WP_005497310.1 458596..460062(-) (rpoN/rpoN1) [Vibrio parahaemolyticus strain X1]
ATGAAACCTTCATTACAACTCAAGCTAGGTCAACAGTTAGCCATGACGCCACAGTTGCAACAAGCGATTCGCTTGCTGCA
GTTGTCGACTCTCGATCTTCAACAAGAAATCCAAGAAGCATTGGACTCAAACCCACTATTGGAAGTTGAAGAAGGCCACG
AAGAACCTCAAGCAAATGGTGAAGACAAATCAGCACTCGAAACTGCTGACAACAGTGCCAACGAGCCAACAGAAATCGAA
GTTCCTGATAGTTCTGACGTCATCGAAAAGTCCGAAATCAGCTCAGAGCTTGAAATCGACACAACTTGGGATGATGTCTA
CAGCGCAAATACGGGCAGTACCGGTTTAGCGTTAGACGATGATATGCCGGTCTACCAAGGCGAAACCACCGAATCGCTAC
ACGATTACTTAATGTGGCAACTCGACTTAACGCCTTTCAGTGAGACCGACCGTACGATTGCCATTGCCATCATTGATGCG
ATTGACGATTACGGCTACCTGACCCTATCTCCTGAAGAGATTCACGAAAGCTTCAACAACGAAGATATTGAGTTGGATGA
AGTCGAAGCCGTGCGCAAACGCATCCAACAGTTTGACCCGCTTGGTGTGGCATCGCAGAACCTGCAAGAATGCTTACTAC
TGCAACTTGCAACCTTCCCAGAAGACACGCCTTGGCTTGCGGAAGCCAAAATGATTCTTGCCGATCACATCGATCACCTT
GGTAATCGCGATTACAAACTGGTCATCAAAGAAACTAAGCTAAAAGAAGCGGATCTACGCGAAGTATTAAAACTGATCCA
ACAGTTAGATCCTCGTCCGGGCAGCCGCATTACCCCAGACGACACAGAATACGTCATTCCGGACGTATCGGTATTTAAAG
ATCATGGGAAATGGACCGTTTCCATCAACCCTGACAGCATTCCAAAGTTAAAAGTTAACCAACAATACGCTCAATTAGGC
AAAGGCAACAGTGCGGATAGCCAGTACATTCGCAGCAATTTGCAAGAGGCAAAATGGTTAATTAAGAGCTTAGAGAGCAG
AAACGAGACGCTACTCAAAGTTGCAAGATGTATTGTTGAACATCAACAAGATTTCTTCGAGTATGGTGAAGAAGCCATGA
AGCCAATGGTACTCAATGATGTAGCCTTGGCGGTGGACATGCATGAATCCACAATATCTCGTGTTACGACACAAAAGTTC
ATGCATACGCCACGTGGCATTTTTGAATTGAAGTACTTCTTCTCCAGCCACGTCAGTACAGACAATGGCGGAGAATGTTC
GTCAACAGCAATCCGTGCACTCATTAAGAAACTGGTCGCGGCAGAGAATACTGCTAAACCACTTAGTGACAGTAAGATTG
CTGCTCTTCTGGCTGACCAAGGGATTCAGGTCGCAAGACGTACGATAGCTAAATATCGAGAATCCTTGGGTATTGCCCCT
TCAAGTCAGCGTAAACGCCTACTTTAA

Domains

Predicted by InterProScan.

Sigma-54, DNA binding domain (Sigma54_DBD)

(328-486)

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

(4-49)

Sigma-54 factor, core binding domain (Sigma54_CBD)

(129-316)


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

44.246

100

0.457