Detailed information    

insolico Bioinformatically predicted

Overview

Name   rpoN/rpoN1   Type   Machinery gene
Locus tag   HC248_RS16070 Genome accession   NZ_CP051461
Coordinates   3525525..3527096 (+) Length   523 a.a.
NCBI ID   WP_168923370.1    Uniprot ID   -
Organism   Polaromonas vacuolata strain KCTC 22033     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 3520525..3532096
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  HC248_RS16045 (HC248_03248) argS 3520643..3522316 (+) 1674 WP_168923366.1 arginine--tRNA ligase -
  HC248_RS16050 (HC248_03249) - 3522407..3523087 (+) 681 WP_168923367.1 SPOR domain-containing protein -
  HC248_RS16055 (HC248_03250) - 3523199..3523852 (+) 654 WP_168923368.1 thiol:disulfide interchange protein DsbA/DsbL -
  HC248_RS16060 (HC248_03251) lptA 3524088..3524702 (+) 615 WP_168923899.1 lipopolysaccharide transport periplasmic protein LptA -
  HC248_RS16065 (HC248_03252) lptB 3524710..3525513 (+) 804 WP_168923369.1 LPS export ABC transporter ATP-binding protein -
  HC248_RS16070 (HC248_03253) rpoN/rpoN1 3525525..3527096 (+) 1572 WP_168923370.1 RNA polymerase factor sigma-54 Machinery gene
  HC248_RS16075 (HC248_03254) - 3527107..3528441 (+) 1335 WP_168923371.1 THUMP domain-containing class I SAM-dependent RNA methyltransferase -
  HC248_RS16080 (HC248_03255) - 3528438..3528851 (+) 414 WP_168923372.1 putative toxin-antitoxin system toxin component, PIN family -
  HC248_RS16085 (HC248_03256) - 3529105..3530874 (+) 1770 WP_168923373.1 hypothetical protein -
  HC248_RS16090 (HC248_03257) - 3530865..3531845 (-) 981 WP_168920864.1 IS30 family transposase -

Sequence

Protein


Download         Length: 523 a.a.        Molecular weight: 57876.93 Da        Isoelectric Point: 4.8181

>NTDB_id=438371 HC248_RS16070 WP_168923370.1 3525525..3527096(+) (rpoN/rpoN1) [Polaromonas vacuolata strain KCTC 22033]
MKQGLSLRVSQHLALTPQLQQSIRLLQLSTLELSQEVEQMLDENPFLEQSEDSAAREDFGLDQVDSPVSQEAQEFESVAE
FTPSHDSTSSSQSTSENSNDNDSTPEISSEAKLEESWDGDGTVETSADDGEWGGDAQPRKNNGDDSDADASDLARSHESL
QDHLHRQALSLRLSEEDRAALYFLIESLNDDGYLEDSLSSLAAGLAGAEPEQLEDREDLEQHFTIALKLLQHMEPAGVGA
RHLAECLSLQLLECESSQAVSAAKAICRQPMELLAKRDIKRLVHLCGFPDAVIRAAIALIARLDPKPGRRFINVERNLIV
PDVLVTKVAKGFKVALNSDVMPRLRVHDIYANALKQHKGQGGPALTQRLQEARWFIKNIQQRFDTILRVSTAIVERQKNF
FTHGELAMRPLVLREIADELGLHESTISRVTTAKYMSTPFGTFELKYFFGSALGTETGGNASSTAVRALIKQFVSSESLK
KPLSDNQISEMLKEQGIECARRTVAKYREALRIAPASLRKALT

Nucleotide


Download         Length: 1572 bp        

>NTDB_id=438371 HC248_RS16070 WP_168923370.1 3525525..3527096(+) (rpoN/rpoN1) [Polaromonas vacuolata strain KCTC 22033]
ATGAAACAAGGCTTGTCACTGCGCGTCTCGCAGCATCTGGCGCTCACGCCCCAGTTGCAGCAATCGATTCGCCTGCTGCA
ACTCTCGACCTTAGAGCTCAGCCAAGAAGTCGAACAAATGCTGGACGAAAACCCTTTTCTAGAGCAATCCGAAGACAGCG
CAGCGCGCGAGGACTTCGGCCTAGACCAAGTTGACTCGCCGGTCAGTCAAGAGGCTCAAGAATTTGAATCCGTCGCCGAA
TTCACGCCCTCCCACGACTCGACCAGCAGCAGTCAAAGCACTAGCGAAAACTCAAACGACAACGACAGCACGCCCGAGAT
CAGCTCTGAAGCCAAGCTCGAAGAAAGCTGGGACGGCGACGGCACAGTAGAGACCTCAGCAGACGACGGCGAATGGGGCG
GCGACGCTCAGCCACGTAAAAACAATGGCGATGACAGCGACGCCGATGCCTCTGATTTGGCCCGCAGCCATGAGTCGCTG
CAAGACCATCTGCACCGCCAAGCGCTTAGCCTGCGCTTGTCTGAAGAAGACCGCGCCGCGCTGTACTTTTTAATCGAATC
ACTCAACGACGATGGCTATTTGGAAGACAGCCTAAGCTCGCTCGCCGCAGGTCTAGCCGGCGCTGAACCCGAGCAGCTCG
AAGACCGTGAAGATCTAGAACAGCACTTCACAATTGCCCTCAAGCTGCTGCAACACATGGAGCCCGCCGGCGTAGGCGCA
CGCCACTTGGCCGAATGCCTAAGCCTGCAACTGCTCGAATGTGAAAGCAGCCAAGCGGTGAGTGCGGCCAAGGCTATTTG
TCGCCAACCCATGGAGTTACTGGCCAAGCGCGACATCAAGCGCTTAGTTCATCTGTGCGGATTTCCTGACGCCGTCATAC
GCGCAGCGATTGCTCTCATCGCCAGACTTGACCCCAAACCGGGCCGGCGCTTTATCAATGTTGAGCGCAACCTAATCGTG
CCCGATGTGCTGGTCACCAAAGTCGCCAAAGGGTTTAAGGTCGCGCTTAACAGCGACGTAATGCCGCGTCTACGCGTGCA
CGACATCTACGCCAACGCCCTGAAGCAACACAAAGGCCAAGGCGGCCCGGCACTCACCCAGCGCTTGCAAGAAGCGCGCT
GGTTTATCAAAAACATACAGCAGCGCTTTGACACCATTTTGCGAGTCAGCACCGCCATCGTCGAGCGCCAGAAAAACTTC
TTCACCCACGGTGAGTTAGCCATGCGGCCGCTGGTGCTGCGCGAGATCGCAGACGAGCTCGGTCTGCATGAATCGACCAT
CTCACGCGTGACCACCGCCAAATACATGAGCACGCCGTTTGGCACTTTTGAGCTGAAGTATTTCTTCGGCTCAGCGCTGG
GCACAGAAACCGGCGGCAACGCATCTAGCACCGCAGTGCGCGCGCTGATTAAGCAGTTTGTGAGCTCAGAGAGTTTAAAA
AAACCACTGAGCGACAATCAGATATCCGAAATGCTCAAAGAGCAAGGCATTGAATGTGCACGCCGCACCGTCGCCAAGTA
CCGGGAAGCCCTGCGCATAGCGCCGGCAAGCCTGCGCAAAGCCCTCACCTGA

Domains

Predicted by InterproScan.

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

(5-48)

Sigma-54 factor, core binding domain (Sigma54_CBD)

(152-350)

Sigma-54, DNA binding domain (Sigma54_DBD)

(365-520)


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

52.751

100

0.532