Detailed information    

insolico Bioinformatically predicted

Overview

Name   rpoN/rpoN1   Type   Machinery gene
Locus tag   Vc3S01_RS02340 Genome accession   NZ_CP020076
Coordinates   489331..490806 (-) Length   491 a.a.
NCBI ID   WP_005432834.1    Uniprot ID   -
Organism   Vibrio campbellii strain 20130629003S01     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 484331..495806
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  Vc3S01_RS02310 (Vc3S01_0410) pmbA 484466..485809 (+) 1344 WP_077200177.1 metalloprotease PmbA -
  Vc3S01_RS02315 (Vc3S01_0411) mgtE 485893..487248 (-) 1356 WP_010450444.1 magnesium transporter -
  Vc3S01_RS02320 (Vc3S01_0412) - 487415..487690 (-) 276 WP_005432843.1 HPr family phosphocarrier protein -
  Vc3S01_RS02325 (Vc3S01_0413) rapZ 487693..488556 (-) 864 WP_045403515.1 RNase adapter RapZ -
  Vc3S01_RS02330 (Vc3S01_0414) ptsN 488571..489017 (-) 447 WP_005432846.1 PTS IIA-like nitrogen regulatory protein PtsN -
  Vc3S01_RS02335 (Vc3S01_0415) hpf 489020..489307 (-) 288 WP_005432838.1 ribosome hibernation promoting factor -
  Vc3S01_RS02340 (Vc3S01_0416) rpoN/rpoN1 489331..490806 (-) 1476 WP_005432834.1 RNA polymerase factor sigma-54 Machinery gene
  Vc3S01_RS02345 (Vc3S01_0417) lptB 490857..491582 (-) 726 WP_005432855.1 LPS export ABC transporter ATP-binding protein -
  Vc3S01_RS02350 (Vc3S01_0418) lptA 491584..492078 (-) 495 WP_005432860.1 lipopolysaccharide transport periplasmic protein LptA -
  Vc3S01_RS02355 (Vc3S01_0419) lptC 492059..492622 (-) 564 WP_005535416.1 LPS export ABC transporter periplasmic protein LptC -
  Vc3S01_RS02360 (Vc3S01_0420) kdsD 492713..493684 (-) 972 WP_077200178.1 arabinose-5-phosphate isomerase KdsD -
  Vc3S01_RS02365 (Vc3S01_0421) - 493720..494685 (-) 966 WP_038891160.1 calcium/sodium antiporter -

Sequence

Protein


Download         Length: 491 a.a.        Molecular weight: 55074.67 Da        Isoelectric Point: 4.3082

>NTDB_id=184477 Vc3S01_RS02340 WP_005432834.1 489331..490806(-) (rpoN/rpoN1) [Vibrio campbellii strain 20130629003S01]
MKPSLQLKLGQQLAMTPQLQQAIRLLQLSTLDLQQEIQEALDSNPLLEVEEGHDEPQANGEDKSASESADNSANEANDAS
EPDLPDSSDVIEKSEISSELEIDTTWDDVYSANTGSTGLALDDDMPVYQGETTESLHDYLMWQLDLTPFSETDRTIALAI
IDAIDDYGYLTLSPEEIHESFDNEEVELDEVEAVRKRIQQFDPLGVASRNLQECLLLQLATFPEDTPWLAEAKMVLSDHI
DHLGNRDYKLVIKETKLKEADLREVLKLIQQLDPRPGSRITPDDTEYVIPDVSVFKDHGKWTVSINPDSIPKLKVNQQYA
QLGKGNSADSQYIRSNLQEAKWLIKSLESRNETLLKVARCIVEHQQDFFEYGEEAMKPMVLNDVALDVDMHESTISRVTT
QKFMHTPRGIFELKYFFSSHVSTDNGGECSSTAIRALIKKLVAAENTAKPLSDSKIAALLADQGIQVARRTIAKYRESLG
IAPSSQRKRLL

Nucleotide


Download         Length: 1476 bp        

>NTDB_id=184477 Vc3S01_RS02340 WP_005432834.1 489331..490806(-) (rpoN/rpoN1) [Vibrio campbellii strain 20130629003S01]
ATGAAACCTTCATTACAACTCAAGCTAGGTCAACAGTTAGCCATGACGCCACAGCTGCAGCAAGCGATTCGTTTGTTGCA
ATTGTCGACGCTCGATCTTCAACAAGAAATCCAAGAAGCGTTGGACTCCAACCCGCTACTGGAAGTTGAAGAAGGCCACG
ATGAGCCTCAAGCAAACGGTGAAGACAAATCAGCGTCTGAATCTGCTGATAACAGTGCGAACGAAGCTAACGACGCCTCA
GAACCCGACCTTCCAGACAGCTCAGACGTGATTGAAAAATCTGAAATCAGCTCTGAGCTAGAAATTGATACCACTTGGGA
TGACGTATACAGCGCAAACACGGGCAGCACAGGCCTAGCGCTGGATGATGACATGCCCGTCTACCAAGGTGAGACCACTG
AATCGCTGCATGATTACCTTATGTGGCAGTTAGACTTAACGCCTTTCAGTGAAACCGACCGCACTATCGCCCTCGCGATC
ATCGATGCCATCGACGACTACGGCTACCTAACCCTATCCCCTGAAGAAATTCACGAGAGCTTCGACAACGAAGAAGTGGA
ATTGGATGAAGTAGAAGCGGTACGTAAGCGTATTCAGCAATTTGACCCGCTCGGTGTAGCCTCTCGCAATCTACAAGAGT
GCCTACTGCTGCAACTGGCAACTTTCCCTGAAGACACGCCATGGCTTGCTGAGGCGAAAATGGTGTTAAGCGATCACATC
GACCACCTTGGCAATCGTGACTACAAGCTGGTCATCAAAGAGACTAAGCTTAAAGAAGCTGACCTGCGTGAAGTACTGAA
GTTGATTCAACAACTTGACCCTCGCCCAGGTAGTCGTATCACACCCGATGACACTGAATACGTCATTCCGGATGTGTCCG
TATTTAAAGATCATGGTAAGTGGACCGTCTCCATAAACCCTGACAGCATTCCGAAACTAAAAGTAAATCAACAATATGCG
CAACTAGGCAAAGGAAACAGTGCGGATAGCCAGTACATTCGCAGCAATTTGCAAGAGGCAAAATGGCTGATTAAGAGCCT
AGAAAGCAGAAACGAGACGCTTCTCAAAGTTGCAAGATGTATTGTTGAACATCAACAAGATTTCTTCGAGTATGGTGAAG
AAGCCATGAAACCAATGGTGCTAAACGACGTAGCATTGGATGTGGACATGCATGAATCGACAATTTCTCGTGTAACAACA
CAGAAGTTTATGCATACCCCACGTGGCATTTTTGAATTGAAGTACTTCTTCTCTAGCCATGTTAGTACAGACAATGGTGG
AGAGTGTTCGTCCACAGCAATTCGCGCACTCATCAAAAAGTTGGTCGCAGCGGAGAATACCGCTAAGCCACTGAGTGATA
GCAAAATTGCTGCTCTTCTGGCTGACCAGGGGATTCAAGTCGCGAGACGTACGATAGCGAAATATCGTGAATCCTTGGGT
ATCGCCCCTTCGAGTCAGCGCAAACGCCTACTTTAG

Domains

Predicted by InterProScan.

Sigma-54 factor, core binding domain (Sigma54_CBD)

(132-319)

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

(4-49)

Sigma-54, DNA binding domain (Sigma54_DBD)

(331-489)


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

43.936

100

0.45

Multiple sequence alignment