Detailed information    

insolico Bioinformatically predicted

Overview

Name   rpoN/rpoN1   Type   Machinery gene
Locus tag   ACHZDB_RS08480 Genome accession   NZ_CP172405
Coordinates   1870261..1871736 (+) Length   491 a.a.
NCBI ID   WP_005432834.1    Uniprot ID   -
Organism   Vibrio campbellii strain LB503     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 1865261..1876736
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  ACHZDB_RS08455 (ACHZDB_08455) - 1866382..1867347 (+) 966 WP_038891160.1 calcium/sodium antiporter -
  ACHZDB_RS08460 (ACHZDB_08460) kdsD 1867383..1868354 (+) 972 WP_399423742.1 arabinose-5-phosphate isomerase KdsD -
  ACHZDB_RS08465 (ACHZDB_08465) lptC 1868445..1869008 (+) 564 WP_005535416.1 LPS export ABC transporter periplasmic protein LptC -
  ACHZDB_RS08470 (ACHZDB_08470) lptA 1868989..1869483 (+) 495 WP_005432860.1 lipopolysaccharide transport periplasmic protein LptA -
  ACHZDB_RS08475 (ACHZDB_08475) lptB 1869485..1870210 (+) 726 WP_005432855.1 LPS export ABC transporter ATP-binding protein -
  ACHZDB_RS08480 (ACHZDB_08480) rpoN/rpoN1 1870261..1871736 (+) 1476 WP_005432834.1 RNA polymerase factor sigma-54 Machinery gene
  ACHZDB_RS08485 (ACHZDB_08485) hpf 1871760..1872047 (+) 288 WP_005432838.1 ribosome hibernation promoting factor -
  ACHZDB_RS08490 (ACHZDB_08490) ptsN 1872050..1872496 (+) 447 WP_005432846.1 PTS IIA-like nitrogen regulatory protein PtsN -
  ACHZDB_RS08495 (ACHZDB_08495) rapZ 1872511..1873374 (+) 864 WP_045403515.1 RNase adapter RapZ -
  ACHZDB_RS08500 (ACHZDB_08500) - 1873377..1873652 (+) 276 WP_005432843.1 HPr family phosphocarrier protein -
  ACHZDB_RS08505 (ACHZDB_08505) mgtE 1873819..1875174 (+) 1356 WP_010450444.1 magnesium transporter -
  ACHZDB_RS08510 (ACHZDB_08510) pmbA 1875264..1876607 (-) 1344 WP_045454961.1 metalloprotease PmbA -

Sequence

Protein


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

>NTDB_id=953429 ACHZDB_RS08480 WP_005432834.1 1870261..1871736(+) (rpoN/rpoN1) [Vibrio campbellii strain LB503]
MKPSLQLKLGQQLAMTPQLQQAIRLLQLSTLDLQQEIQEALDSNPLLEVEEGHDEPQANGEDKSASESADNSANEANDAS
EPDLPDSSDVIEKSEISSELEIDTTWDDVYSANTGSTGLALDDDMPVYQGETTESLHDYLMWQLDLTPFSETDRTIALAI
IDAIDDYGYLTLSPEEIHESFDNEEVELDEVEAVRKRIQQFDPLGVASRNLQECLLLQLATFPEDTPWLAEAKMVLSDHI
DHLGNRDYKLVIKETKLKEADLREVLKLIQQLDPRPGSRITPDDTEYVIPDVSVFKDHGKWTVSINPDSIPKLKVNQQYA
QLGKGNSADSQYIRSNLQEAKWLIKSLESRNETLLKVARCIVEHQQDFFEYGEEAMKPMVLNDVALDVDMHESTISRVTT
QKFMHTPRGIFELKYFFSSHVSTDNGGECSSTAIRALIKKLVAAENTAKPLSDSKIAALLADQGIQVARRTIAKYRESLG
IAPSSQRKRLL

Nucleotide


Download         Length: 1476 bp        

>NTDB_id=953429 ACHZDB_RS08480 WP_005432834.1 1870261..1871736(+) (rpoN/rpoN1) [Vibrio campbellii strain LB503]
ATGAAACCTTCATTACAACTCAAGCTAGGTCAACAGTTAGCCATGACGCCACAGCTGCAGCAAGCGATTCGTTTGTTGCA
ATTGTCGACGCTCGATCTTCAACAAGAAATCCAAGAAGCGTTGGACTCCAACCCGCTACTGGAAGTTGAAGAAGGCCACG
ATGAGCCTCAAGCAAACGGTGAAGACAAATCAGCGTCTGAATCTGCTGATAACAGTGCAAACGAAGCTAACGACGCCTCA
GAACCCGACCTTCCAGACAGCTCAGACGTGATTGAAAAATCTGAAATCAGCTCTGAGCTAGAAATTGATACCACTTGGGA
TGACGTATACAGCGCAAACACGGGCAGCACAGGCCTAGCGCTGGATGATGACATGCCCGTCTACCAAGGTGAGACCACTG
AATCGCTGCATGATTACCTTATGTGGCAGTTAGACTTAACGCCTTTCAGTGAAACCGACCGCACCATTGCCCTCGCGATC
ATCGATGCGATCGACGACTACGGCTACCTAACCCTATCCCCAGAAGAAATTCACGAGAGCTTCGACAACGAAGAAGTGGA
ATTGGATGAAGTAGAAGCGGTACGTAAGCGTATTCAGCAATTTGACCCGCTAGGTGTAGCCTCTCGCAATCTGCAAGAGT
GCCTATTGCTACAACTGGCAACTTTCCCTGAAGACACGCCATGGCTTGCTGAGGCGAAAATGGTGTTAAGCGATCACATC
GACCACCTTGGCAATCGTGACTACAAGCTGGTCATCAAAGAGACTAAGCTTAAAGAAGCGGACTTGCGTGAAGTATTGAA
GTTGATTCAACAACTTGACCCTCGCCCAGGTAGTCGTATCACACCCGATGACACTGAATACGTCATTCCGGATGTGTCCG
TATTTAAAGATCATGGTAAGTGGACCGTCTCCATAAACCCTGACAGCATTCCGAAACTAAAAGTAAATCAACAATATGCG
CAACTAGGCAAAGGAAACAGTGCGGATAGCCAGTACATTCGCAGCAATTTGCAAGAGGCAAAATGGCTGATTAAGAGCCT
AGAAAGCAGAAACGAGACGCTTCTCAAAGTTGCAAGATGTATTGTTGAACATCAACAAGATTTCTTCGAGTATGGTGAAG
AAGCCATGAAACCAATGGTGCTAAACGACGTAGCATTGGATGTGGACATGCATGAATCGACAATTTCTCGTGTAACAACA
CAGAAGTTTATGCATACCCCACGTGGCATTTTTGAATTGAAGTACTTCTTCTCTAGCCATGTTAGTACAGACAATGGTGG
AGAGTGTTCGTCCACAGCAATTCGCGCACTCATCAAAAAGTTGGTAGCAGCGGAGAATACCGCTAAGCCACTGAGTGATA
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