Detailed information    

insolico Bioinformatically predicted

Overview

Name   rpoN/rpoN1   Type   Machinery gene
Locus tag   WJ038_RS13870 Genome accession   NZ_CP149505
Coordinates   2988707..2990173 (+) Length   488 a.a.
NCBI ID   WP_005484866.1    Uniprot ID   -
Organism   Vibrio parahaemolyticus strain EB101     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 2983707..2995173
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  WJ038_RS13845 (WJ038_13890) - 2984827..2985792 (+) 966 WP_005455122.1 calcium/sodium antiporter -
  WJ038_RS13850 (WJ038_13895) kdsD 2985829..2986800 (+) 972 WP_005484881.1 arabinose-5-phosphate isomerase KdsD -
  WJ038_RS13855 (WJ038_13900) lptC 2986891..2987454 (+) 564 WP_005467805.1 LPS export ABC transporter periplasmic protein LptC -
  WJ038_RS13860 (WJ038_13905) lptA 2987435..2987929 (+) 495 WP_005467803.1 lipopolysaccharide transport periplasmic protein LptA -
  WJ038_RS13865 (WJ038_13910) lptB 2987931..2988656 (+) 726 WP_005467801.1 LPS export ABC transporter ATP-binding protein -
  WJ038_RS13870 (WJ038_13915) rpoN/rpoN1 2988707..2990173 (+) 1467 WP_005484866.1 RNA polymerase factor sigma-54 Machinery gene
  WJ038_RS13875 (WJ038_13920) hpf 2990198..2990485 (+) 288 WP_005467451.1 ribosome hibernation promoting factor -
  WJ038_RS13880 (WJ038_13925) ptsN 2990488..2990934 (+) 447 WP_005467453.1 PTS IIA-like nitrogen regulatory protein PtsN -
  WJ038_RS13885 (WJ038_13930) rapZ 2990949..2991812 (+) 864 WP_029804544.1 RNase adapter RapZ -
  WJ038_RS13890 (WJ038_13935) - 2991815..2992090 (+) 276 WP_005468661.1 HPr family phosphocarrier protein -
  WJ038_RS13895 (WJ038_13940) mgtE 2992310..2993665 (+) 1356 WP_005468659.1 magnesium transporter -
  WJ038_RS13900 (WJ038_13945) pmbA 2993742..2995085 (-) 1344 WP_005459755.1 metalloprotease PmbA -

Sequence

Protein


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

>NTDB_id=874762 WJ038_RS13870 WP_005484866.1 2988707..2990173(+) (rpoN/rpoN1) [Vibrio parahaemolyticus strain EB101]
MKPSLQLKLGQQLAMTPQLQQAIRLLQLSTLDLQQEIQEALDSNPLLEVEEGHEEPQANGEDKSALETADNSANEPTEIE
VPDSSDVIEKSEISSELEIDTTWDDVYSANTGSTGLALDDDMPVYQGETTESLHDYLMWQLDLTPFSETDRTIAIAIIDA
IDDYGYLTLSPEEIHESFDNEDIELDEVEAVRKRIQQFDPLGVASRNLQECLLLQLATFPEDTPWLAEAKMILADHIDHL
GNRDYKLVIKETKLKEADLREVLKLIQQLDPRPGSRITPDDTEYVIPDVSVFKDHGKWTVSINPDSIPKLKVNQQYAQLG
KGNSADSQYIRSNLQEAKWLIKSLESRNETLLKVARCIVEHQQDFFEYGEEAMKPMVLNDVALAVDMHESTISRVTTQKF
MHTPRGIFELKYFFSSHVSTDNGGECSSTAIRALIKKLVAAENTAKPLSDSKIAALLADQGIQVARRTIAKYRESLGIAP
SSQRKRLL

Nucleotide


Download         Length: 1467 bp        

>NTDB_id=874762 WJ038_RS13870 WP_005484866.1 2988707..2990173(+) (rpoN/rpoN1) [Vibrio parahaemolyticus strain EB101]
ATGAAACCTTCATTACAACTCAAGCTAGGTCAACAGTTAGCCATGACGCCACAGTTGCAACAAGCGATTCGCTTGCTGCA
GTTGTCGACTCTCGATCTTCAACAAGAAATCCAAGAAGCGTTGGACTCAAACCCGCTATTGGAAGTTGAAGAAGGCCACG
AAGAACCTCAAGCAAATGGTGAAGACAAATCAGCACTCGAAACTGCTGACAACAGTGCCAACGAGCCAACAGAAATCGAA
GTTCCTGATAGTTCTGACGTCATCGAAAAATCCGAAATCAGCTCAGAGCTTGAAATCGACACAACTTGGGATGATGTCTA
CAGCGCAAATACGGGCAGTACCGGTTTAGCGTTAGACGATGATATGCCGGTCTACCAAGGCGAAACCACAGAATCGCTGC
ACGATTACTTAATGTGGCAACTCGACTTAACGCCTTTCAGTGAAACCGACCGTACGATTGCCATTGCCATCATTGATGCG
ATTGACGATTACGGCTATCTGACCCTATCTCCTGAAGAGATTCACGAAAGCTTCGACAACGAAGATATTGAGTTGGATGA
AGTCGAAGCCGTGCGCAAACGCATCCAACAGTTTGACCCGCTTGGTGTGGCATCGCGGAACCTGCAAGAATGCTTACTAC
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, 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