Detailed information    

insolico Bioinformatically predicted

Overview

Name   rpoN/rpoN1   Type   Machinery gene
Locus tag   RFER_RS03880 Genome accession   NC_007908
Coordinates   814467..816059 (+) Length   530 a.a.
NCBI ID   WP_011463101.1    Uniprot ID   Q220M5
Organism   Rhodoferax ferrireducens T118     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 809467..821059
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  RFER_RS03855 (Rfer_0773) argS 809683..811380 (+) 1698 WP_011463096.1 arginine--tRNA ligase -
  RFER_RS03860 (Rfer_0774) - 811448..812083 (+) 636 WP_011463097.1 SPOR domain-containing protein -
  RFER_RS03865 (Rfer_0775) - 812157..812831 (+) 675 WP_011463098.1 thiol:disulfide interchange protein DsbA/DsbL -
  RFER_RS03870 (Rfer_0776) lptA 813018..813659 (+) 642 WP_011463099.1 lipopolysaccharide transport periplasmic protein LptA -
  RFER_RS03875 (Rfer_0777) lptB 813659..814453 (+) 795 WP_011463100.1 LPS export ABC transporter ATP-binding protein -
  RFER_RS03880 (Rfer_0778) rpoN/rpoN1 814467..816059 (+) 1593 WP_011463101.1 RNA polymerase factor sigma-54 Machinery gene
  RFER_RS03885 (Rfer_0779) - 816056..817342 (+) 1287 WP_011463102.1 THUMP domain-containing class I SAM-dependent RNA methyltransferase -
  RFER_RS03890 (Rfer_0780) - 817339..817749 (+) 411 WP_011463103.1 putative toxin-antitoxin system toxin component, PIN family -
  RFER_RS03895 (Rfer_0781) - 817840..819516 (+) 1677 WP_011463104.1 sensor histidine kinase -
  RFER_RS03900 (Rfer_0782) - 819716..820462 (+) 747 WP_011463105.1 response regulator transcription factor -

Sequence

Protein


Download         Length: 530 a.a.        Molecular weight: 58085.52 Da        Isoelectric Point: 4.8255

>NTDB_id=25544 RFER_RS03880 WP_011463101.1 814467..816059(+) (rpoN/rpoN1) [Rhodoferax ferrireducens T118]
MKQGLSLRVSQHLALTPQLQQSIRLLQLSTLELSAEVDQMLDDNPFLEMTADESPREEFGLAQADTPVRGDDLDAERATS
SVADYPTETRATAENDSNDSPLSADDAQSWEGDGSASLAPDDSEWGGDAKARSNNLNGDDDADVTELARTQVSLQSHLHA
QALALRLSAEDRAALQFLIESLNDDGYLEDTLTSLAEGLAGGDEAQVEQLVHHFTVALGLLQSLEPAGVGARDLAECLSL
QLRALQQLERLEPARAATVQVALRICAQPMELLARRDVKRLMLLCDATDAAVREAIALIARLEPKPGRRFVNVERNIVVP
DVLVIQVGQGTQAKFQVRLNTDVMPRLRVHDIYANAIKQHKGGGNDASSYAALQQRLQEARWFIKNIQQRFDTILRVSSA
IVERQKSFFMHGELAMRPLVLREIAEELGLHESTISRVTTAKYMATPFGTFELKYFFGSGLGTESGGNASSTAVRALIKQ
FISAESPAKPLSDHQLSEMLKEQGIECARRTVAKYREGLRIAPASLRKAL

Nucleotide


Download         Length: 1593 bp        

>NTDB_id=25544 RFER_RS03880 WP_011463101.1 814467..816059(+) (rpoN/rpoN1) [Rhodoferax ferrireducens T118]
ATGAAACAAGGCCTTTCCCTTCGGGTTTCGCAGCATCTGGCGCTGACGCCACAGTTGCAGCAGTCGATCCGCTTGCTGCA
ACTCTCCACGCTGGAGCTCAGCGCGGAGGTGGACCAGATGCTCGATGACAACCCGTTTCTGGAGATGACGGCAGACGAGT
CGCCGCGTGAGGAATTTGGTCTGGCGCAGGCTGACACACCGGTCCGGGGTGATGACCTCGACGCTGAACGTGCTACAAGT
TCGGTAGCTGACTATCCAACAGAGACGAGGGCTACAGCCGAGAATGATTCAAATGATTCGCCGCTCTCGGCGGACGATGC
GCAGAGTTGGGAGGGCGACGGCAGCGCCTCCTTGGCGCCCGATGACAGCGAGTGGGGCGGTGACGCCAAAGCCCGCAGCA
ACAACCTCAACGGCGATGACGACGCCGATGTGACCGAGCTGGCGCGCACCCAGGTGTCGCTGCAAAGCCACCTGCACGCG
CAGGCGCTGGCCTTGCGCCTGAGTGCCGAGGATCGCGCCGCCTTGCAGTTCTTGATCGAGTCGCTTAATGACGATGGTTA
TCTGGAAGACACGCTGACCTCGCTCGCCGAGGGGCTCGCCGGCGGCGATGAGGCCCAGGTGGAGCAGCTGGTCCACCATT
TCACGGTCGCCTTGGGGCTGCTGCAGAGCCTGGAGCCGGCGGGTGTGGGTGCGCGAGATCTGGCGGAATGCCTGAGTCTG
CAACTGCGCGCCTTGCAGCAGCTGGAGCGGCTAGAGCCGGCCCGCGCCGCCACCGTGCAGGTGGCGCTGCGTATTTGTGC
CCAACCCATGGAGTTGCTGGCCCGGCGTGACGTCAAGCGCCTGATGCTGCTGTGCGACGCGACGGATGCTGCCGTGCGCG
AAGCCATTGCGCTGATCGCCCGTCTGGAGCCCAAGCCGGGGCGGCGCTTCGTGAATGTGGAGCGCAACATCGTGGTGCCC
GATGTCCTGGTGATTCAAGTGGGCCAGGGTACGCAGGCCAAATTTCAGGTGCGCCTGAACACCGATGTGATGCCGCGCCT
GCGCGTGCACGACATCTACGCCAATGCCATCAAACAGCACAAGGGCGGCGGCAACGATGCGTCCAGCTACGCCGCCCTGC
AGCAGCGCCTGCAGGAGGCACGCTGGTTCATCAAGAACATCCAGCAGCGCTTTGACACCATCCTGCGCGTCAGCTCGGCC
ATCGTCGAGCGGCAAAAGAGTTTTTTCATGCATGGCGAACTCGCCATGCGCCCGCTGGTGCTGCGTGAGATTGCCGAAGA
GCTCGGTCTGCACGAGTCCACCATCAGCCGCGTGACCACCGCCAAATACATGGCGACCCCGTTTGGCACCTTCGAGCTCA
AGTATTTCTTTGGCTCCGGCCTGGGCACCGAGTCGGGTGGCAATGCGTCGAGCACGGCGGTGCGGGCCTTGATCAAACAA
TTTATCAGCGCCGAGAGCCCGGCCAAGCCGCTCAGTGACCACCAGTTGTCCGAGATGCTCAAAGAGCAGGGCATCGAATG
CGCCCGCCGCACCGTGGCCAAATACCGCGAGGGGCTGCGCATCGCTCCCGCGAGCTTAAGGAAAGCCTTGTGA

Domains

Predicted by InterproScan.

Sigma-54, DNA binding domain (Sigma54_DBD)

(373-528)

Sigma-54 factor, core binding domain (Sigma54_CBD)

(145-353)

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

(5-49)


Secondary structure

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



3D structure

Source ID Structure
  AlphaFold DB Q220M5

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

50.841

100

0.513

Multiple sequence alignment