Detailed information    

insolico Bioinformatically predicted

Overview

Name   rpoN/rpoN1   Type   Machinery gene
Locus tag   PFX98_RS05495 Genome accession   NZ_CP116346
Coordinates   1207883..1209394 (+) Length   503 a.a.
NCBI ID   WP_285234164.1    Uniprot ID   -
Organism   Paucibacter sediminis strain S2-9     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 1202883..1214394
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  PFX98_RS05470 (PFX98_05470) argS 1203296..1205002 (+) 1707 WP_285234159.1 arginine--tRNA ligase -
  PFX98_RS05475 (PFX98_05475) - 1204999..1205655 (+) 657 WP_285234160.1 SPOR domain-containing protein -
  PFX98_RS05480 (PFX98_05480) - 1205723..1206388 (+) 666 WP_285234161.1 thiol:disulfide interchange protein DsbA/DsbL -
  PFX98_RS05485 (PFX98_05485) lptA 1206450..1207103 (+) 654 WP_285234162.1 lipopolysaccharide transport periplasmic protein LptA -
  PFX98_RS05490 (PFX98_05490) lptB 1207100..1207879 (+) 780 WP_285234163.1 LPS export ABC transporter ATP-binding protein -
  PFX98_RS05495 (PFX98_05495) rpoN/rpoN1 1207883..1209394 (+) 1512 WP_285234164.1 RNA polymerase factor sigma-54 Machinery gene
  PFX98_RS05500 (PFX98_05500) - 1209459..1212173 (+) 2715 WP_285234165.1 EAL domain-containing protein -
  PFX98_RS05505 (PFX98_05505) - 1212199..1213476 (+) 1278 WP_285234166.1 THUMP domain-containing protein -
  PFX98_RS05510 (PFX98_05510) - 1213488..1214222 (-) 735 WP_285234167.1 16S rRNA (uracil(1498)-N(3))-methyltransferase -

Sequence

Protein


Download         Length: 503 a.a.        Molecular weight: 55266.42 Da        Isoelectric Point: 4.5900

>NTDB_id=776786 PFX98_RS05495 WP_285234164.1 1207883..1209394(+) (rpoN/rpoN1) [Paucibacter sediminis strain S2-9]
MKPSLQVRLSQHLSLTPQLQQSIRLLQLSTLELNQEVEQMLTSNPLLETDEEFGEAAPVRLDAAAPLQREDSAAEVSAES
SGEGESVAEIKGDDFGTTERDDWENGTERDDFDGIRETPGTGSGSGDDDGERPEQQGPGISLQEHLNAQLAGMQLSQTDR
AALMVLIESLNEDGYLEDSLEELTEALSGDADAEAREDLLDTLKCALKWLQSLEPVGVGARNLSECLLLQLRAKPRSQAQ
VVAILICKQYLELLAKRDLKRLMSLTGADEALLREAQGMITELEPKPGRQFARSEAAAVVPDVIVRKSGRGFRVTLNPDV
MPKLRINELYAHALRQTRGGVSNSPLGTQLQEARWFIKNIQQRFDTILRVSEAIVERQKGFFSHGELAMKPLVLREIADE
LGLHESTISRVTTAKYMATPWGTFELKYFFGSGLNTEAGGNASSTAVRALIKQFVAAEDAAKPLSDSQLSSMLEEQGIQV
ARRTVAKYREALKIAPANLRKAM

Nucleotide


Download         Length: 1512 bp        

>NTDB_id=776786 PFX98_RS05495 WP_285234164.1 1207883..1209394(+) (rpoN/rpoN1) [Paucibacter sediminis strain S2-9]
ATGAAACCGTCGCTGCAGGTACGCCTCTCCCAGCATCTGTCGCTGACGCCGCAGCTGCAGCAGTCCATCCGTCTGCTGCA
GCTCTCCACCCTGGAGCTGAACCAGGAAGTGGAGCAGATGCTCACCAGCAACCCGCTGCTGGAAACCGACGAGGAGTTTG
GCGAGGCCGCGCCGGTGCGCCTGGATGCGGCGGCGCCGCTGCAGCGCGAGGACTCGGCGGCCGAAGTCAGCGCGGAGAGC
AGCGGCGAGGGCGAGTCGGTGGCCGAGATCAAGGGCGACGACTTCGGCACCACCGAGCGCGACGACTGGGAGAACGGCAC
CGAGCGCGACGACTTCGACGGCATCCGTGAAACACCCGGCACGGGCAGCGGCAGCGGCGACGACGATGGCGAGCGCCCCG
AACAGCAGGGCCCCGGCATCTCGCTGCAGGAGCATCTGAACGCCCAGCTCGCCGGCATGCAGCTGAGCCAGACCGACCGC
GCCGCGCTGATGGTGCTGATCGAGTCGCTCAACGAGGACGGCTATCTGGAAGACAGCCTGGAAGAGCTCACCGAGGCGCT
CTCGGGCGATGCCGATGCCGAGGCGCGCGAGGATCTGCTGGACACGCTCAAATGCGCGCTCAAGTGGTTGCAGAGCCTGG
AGCCGGTGGGCGTGGGCGCGCGCAACCTGTCCGAATGCCTACTGCTGCAGTTGCGCGCCAAGCCGCGCAGCCAGGCCCAG
GTGGTGGCGATCCTGATCTGCAAGCAATACCTCGAGCTGCTGGCCAAGCGCGACCTGAAGCGCCTGATGTCGCTCACCGG
CGCCGACGAGGCCTTGCTGCGCGAGGCCCAGGGCATGATCACCGAGCTGGAGCCCAAGCCGGGCCGCCAGTTCGCGCGCA
GCGAGGCGGCGGCGGTGGTGCCGGACGTGATCGTGCGCAAGTCCGGCCGCGGCTTCCGCGTCACGCTCAACCCCGACGTG
ATGCCCAAGCTGCGCATCAACGAGCTCTACGCCCATGCGCTGCGTCAGACGCGCGGCGGCGTCAGCAATTCGCCGCTGGG
CACGCAGCTGCAGGAGGCGCGCTGGTTCATCAAGAACATCCAGCAGCGCTTCGACACCATCCTGCGCGTCTCCGAGGCCA
TCGTGGAGCGCCAGAAGGGCTTCTTCTCGCATGGCGAGCTGGCGATGAAGCCGCTGGTGCTGCGCGAGATCGCCGACGAG
CTGGGCCTGCACGAGTCCACCATCTCGCGCGTCACCACCGCCAAATACATGGCCACGCCCTGGGGCACCTTCGAGCTCAA
GTACTTCTTCGGCTCGGGGCTCAACACCGAGGCGGGCGGCAATGCCTCCAGCACCGCGGTGCGCGCCCTCATCAAGCAGT
TCGTGGCCGCCGAGGATGCCGCCAAGCCGCTCTCGGACAGCCAGCTTTCCAGCATGCTGGAGGAGCAGGGCATCCAGGTG
GCGCGCCGCACCGTGGCGAAATACCGCGAAGCACTGAAGATCGCGCCGGCCAATCTGCGCAAGGCCATGTAG

Domains

Predicted by InterproScan.

Sigma-54, DNA binding domain (Sigma54_DBD)

(348-501)

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

(4-48)

Sigma-54 factor, core binding domain (Sigma54_CBD)

(140-330)


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

53.578

100

0.551