Detailed information    

insolico Bioinformatically predicted

Overview

Name   rpoN/rpoN1   Type   Machinery gene
Locus tag   RD110_RS25395 Genome accession   NZ_CP019236
Coordinates   5480702..5482294 (+) Length   530 a.a.
NCBI ID   WP_076203473.1    Uniprot ID   A0A1P8K2A8
Organism   Rhodoferax koreense strain DCY-110     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 5475702..5487294
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  RD110_RS25370 (RD110_25370) argS 5476029..5477726 (+) 1698 WP_076203444.1 arginine--tRNA ligase -
  RD110_RS25375 (RD110_25375) - 5477734..5478450 (+) 717 WP_076203447.1 SPOR domain-containing protein -
  RD110_RS25380 (RD110_25380) - 5478520..5479188 (+) 669 WP_076203450.1 thiol:disulfide interchange protein DsbA/DsbL -
  RD110_RS25385 (RD110_25385) lptA 5479287..5479910 (+) 624 WP_076203469.1 lipopolysaccharide transport periplasmic protein LptA -
  RD110_RS25390 (RD110_25390) lptB 5479910..5480701 (+) 792 WP_076203470.1 LPS export ABC transporter ATP-binding protein -
  RD110_RS25395 (RD110_25395) rpoN/rpoN1 5480702..5482294 (+) 1593 WP_076203473.1 RNA polymerase factor sigma-54 Machinery gene
  RD110_RS25400 (RD110_25400) - 5482322..5483566 (+) 1245 WP_076203475.1 class I SAM-dependent RNA methyltransferase -
  RD110_RS25405 (RD110_25405) - 5483563..5483976 (+) 414 WP_239467120.1 putative toxin-antitoxin system toxin component, PIN family -
  RD110_RS25410 (RD110_25410) - 5483957..5485615 (-) 1659 WP_076203481.1 FMN-binding glutamate synthase family protein -
  RD110_RS25415 (RD110_25415) - 5485721..5486569 (+) 849 WP_076203483.1 UPF0149 family protein -
  RD110_RS25420 (RD110_25420) - 5486587..5487069 (-) 483 WP_076203486.1 nuclear transport factor 2 family protein -

Sequence

Protein


Download         Length: 530 a.a.        Molecular weight: 58467.61 Da        Isoelectric Point: 4.6207

>NTDB_id=214325 RD110_RS25395 WP_076203473.1 5480702..5482294(+) (rpoN/rpoN1) [Rhodoferax koreense strain DCY-110]
MKQGLSLRVSQHLALTPQLQQSIRLLQLSTLELSAEVEQMLDDNPFLEVNMDEAPREEFGLAQADAQVNTDDRESEFSSS
TAATATETATVETPAESESPLTGQDDSQSWDGDGTSEIAPDDSEWGGDAPARQNNLGEDGEVDATELARSQESLTSFLHR
QALALRLGEEDSAALRFLIESLNDDGYLEDSLLALAQGLAGAEDGEDVDELVHRFTVALGLLQSLEPVGVGARTLEECLS
IQLRAMFDEDAGEEEEQVRRAALRMCGLSMDLLARRDVKRLSHLCNQPDTVIKAAMGLIARLEPKPGRRFVDVERNIVVP
DVIVVKIGRGAQARFRVQLNADVMPRLRVHDIYANALKQHKGGGKDSSNNAALQQRLQEARWFIKNIQQRFDTILRVSNA
IVERQKNFFSHGELAMRPLVLREIADELGLHESTISRVTTAKYMATPHGTFELKYFFGSSLGTETGGNASSTAVRALIKQ
FVSSEDPKKPLSDSQLSDMLKEQGIECARRTVAKYREALRIAPTNLRKSL

Nucleotide


Download         Length: 1593 bp        

>NTDB_id=214325 RD110_RS25395 WP_076203473.1 5480702..5482294(+) (rpoN/rpoN1) [Rhodoferax koreense strain DCY-110]
ATGAAGCAAGGCCTTTCCCTCCGCGTTTCGCAGCATCTGGCGTTGACGCCGCAGCTGCAGCAGTCGATCCGGCTGTTGCA
ATTGTCCACGCTCGAATTGAGCGCGGAAGTCGAGCAGATGCTCGACGACAACCCCTTCCTCGAAGTCAACATGGACGAGG
CGCCGCGCGAGGAGTTCGGGCTGGCGCAGGCCGATGCGCAGGTGAACACGGACGACCGCGAATCCGAGTTCTCGAGCAGC
ACCGCCGCCACGGCGACCGAGACCGCAACGGTGGAGACCCCCGCCGAATCCGAGAGTCCGCTGACCGGCCAGGACGACAG
CCAGAGCTGGGATGGGGACGGCACTTCCGAGATCGCCCCCGACGACAGCGAATGGGGTGGCGACGCACCGGCGCGGCAGA
ACAACCTCGGCGAAGACGGCGAGGTCGATGCCACCGAACTCGCGCGCAGCCAGGAATCGCTGACCTCGTTCCTGCACCGC
CAGGCGCTGGCCCTGCGCCTGGGCGAAGAAGACAGCGCGGCGCTGCGTTTCCTCATCGAGTCGCTGAACGACGACGGCTA
CCTCGAAGACAGCCTGCTCGCCCTGGCGCAGGGCCTGGCGGGCGCGGAAGACGGTGAGGACGTCGATGAACTGGTGCACC
GCTTCACCGTGGCGCTGGGCCTGCTGCAGAGCCTGGAACCGGTGGGCGTAGGCGCACGAACGCTGGAGGAATGCCTGTCG
ATCCAGTTGCGCGCGATGTTCGACGAGGATGCCGGCGAAGAGGAGGAACAGGTGCGCCGCGCCGCGCTACGCATGTGCGG
CCTGTCGATGGACCTGCTGGCGCGGCGCGATGTGAAACGGCTGTCGCACTTGTGCAACCAGCCCGACACCGTGATCAAGG
CGGCGATGGGCCTGATCGCCCGGCTGGAACCCAAGCCGGGCCGCCGTTTCGTCGACGTGGAGCGCAACATCGTCGTGCCC
GACGTGATCGTGGTCAAGATCGGCCGCGGCGCGCAGGCGCGCTTCCGCGTGCAGCTCAATGCCGACGTGATGCCCAGGCT
GCGCGTGCACGACATCTACGCCAACGCGCTCAAGCAACACAAGGGCGGTGGCAAGGATTCTTCGAACAACGCCGCGCTGC
AGCAGCGGCTGCAGGAGGCGCGCTGGTTCATCAAGAACATCCAGCAACGCTTCGACACCATCCTGCGGGTATCGAACGCC
ATCGTCGAACGGCAGAAGAATTTCTTCAGCCACGGCGAGCTGGCCATGCGCCCGCTGGTGCTGCGCGAGATCGCCGATGA
ACTCGGCCTGCACGAATCGACCATCAGCCGCGTCACCACGGCCAAGTACATGGCCACGCCGCACGGCACTTTCGAACTGA
AGTATTTTTTCGGCTCGTCGCTCGGCACCGAGACGGGCGGCAACGCGTCGAGCACCGCCGTGCGCGCGTTGATCAAGCAG
TTCGTCTCGTCCGAAGACCCGAAGAAGCCGTTGTCGGACAGCCAGCTCTCCGACATGCTGAAGGAGCAAGGCATCGAATG
TGCGCGGCGCACGGTGGCCAAATACCGCGAAGCCTTGCGCATCGCGCCAACGAACCTCCGGAAATCCCTTTAA

Domains

Predicted by InterproScan.

Sigma-54 factor, core binding domain (Sigma54_CBD)

(145-353)

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

(5-49)

Sigma-54, DNA binding domain (Sigma54_DBD)

(372-528)


Secondary structure

Protein secondary structures were predicted by S4PRED and visualized by seqviz.



3D structure

Source ID Structure
  AlphaFold DB A0A1P8K2A8

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

51.02

100

0.519

Multiple sequence alignment