Detailed information    

insolico Bioinformatically predicted

Overview

Name   rpoN/rpoN1   Type   Machinery gene
Locus tag   NDR89_RS24695 Genome accession   NZ_CP098736
Coordinates   3200619..3202097 (+) Length   492 a.a.
NCBI ID   WP_252253929.1    Uniprot ID   -
Organism   Cupriavidus gilardii strain QJ1     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Related MGE

Note: This gene co-localizes with putative mobile genetic elements (MGEs) in the genome predicted by VRprofile2, as detailed below.

Gene-MGE association summary

MGE type MGE coordinates Gene coordinates Relative position Distance (bp)
Genomic island 3202147..3218864 3200619..3202097 flank 50


Gene organization within MGE regions


Location: 3200619..3218864
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  NDR89_RS24695 (NDR89_24695) rpoN/rpoN1 3200619..3202097 (+) 1479 WP_252253929.1 RNA polymerase factor sigma-54 Machinery gene
  NDR89_RS24700 (NDR89_24700) hpf 3202147..3202500 (+) 354 WP_053821036.1 ribosome hibernation-promoting factor, HPF/YfiA family -
  NDR89_RS24705 (NDR89_24705) ptsN 3202880..3203335 (+) 456 WP_053821035.1 PTS IIA-like nitrogen regulatory protein PtsN -
  NDR89_RS24710 (NDR89_24710) hprK 3203408..3204379 (+) 972 WP_006576781.1 HPr(Ser) kinase/phosphatase -
  NDR89_RS24715 (NDR89_24715) - 3204556..3204846 (+) 291 WP_053821034.1 PsiF family protein -
  NDR89_RS24720 (NDR89_24720) rapZ 3205083..3205964 (+) 882 WP_053821033.1 RNase adapter RapZ -
  NDR89_RS24725 (NDR89_24725) - 3206049..3206702 (+) 654 WP_053821032.1 LON peptidase substrate-binding domain-containing protein -
  NDR89_RS24730 (NDR89_24730) mutY 3206763..3207962 (-) 1200 WP_232962974.1 A/G-specific adenine glycosylase -
  NDR89_RS24735 (NDR89_24735) mutM 3208017..3208910 (-) 894 WP_053821030.1 bifunctional DNA-formamidopyrimidine glycosylase/DNA-(apurinic or apyrimidinic site) lyase -
  NDR89_RS24740 (NDR89_24740) - 3209046..3211007 (+) 1962 WP_082371378.1 tetratricopeptide repeat protein -
  NDR89_RS24745 (NDR89_24745) lolB 3211136..3211744 (+) 609 WP_174781165.1 lipoprotein insertase outer membrane protein LolB -
  NDR89_RS24750 (NDR89_24750) ispE 3211844..3212716 (+) 873 WP_252253082.1 4-(cytidine 5'-diphospho)-2-C-methyl-D-erythritol kinase -
  NDR89_RS24760 (NDR89_24760) - 3212930..3213883 (+) 954 WP_006576809.1 ribose-phosphate pyrophosphokinase -
  NDR89_RS24765 (NDR89_24765) - 3214031..3214642 (+) 612 WP_053821027.1 50S ribosomal protein L25/general stress protein Ctc -
  NDR89_RS24770 (NDR89_24770) pth 3214799..3215389 (+) 591 WP_151023113.1 aminoacyl-tRNA hydrolase -
  NDR89_RS24775 (NDR89_24775) - 3215450..3217039 (-) 1590 WP_252253083.1 hypothetical protein -
  NDR89_RS24780 (NDR89_24780) - 3217147..3218370 (-) 1224 WP_144425728.1 hypothetical protein -
  NDR89_RS24785 (NDR89_24785) - 3218604..3218864 (-) 261 WP_252253084.1 YfhL family 4Fe-4S dicluster ferredoxin -

Sequence

Protein


Download         Length: 492 a.a.        Molecular weight: 54901.31 Da        Isoelectric Point: 5.0336

>NTDB_id=697509 NDR89_RS24695 WP_252253929.1 3200619..3202097(+) (rpoN/rpoN1) [Cupriavidus gilardii strain QJ1]
MKPSLQLRLSQHLALTPQLQQSIRLLQLSTLELQQEVEQALTENPLLERENDWIESPLRVAADGSVNVQTATTTPPAEPA
APADSHADGTAAADEGYADGAGDDYGGDWSLDDFARRPQSDEDEKTPLQLRDAEPTLREYLMEQLTPLKISTRDKGLAIF
LIESLDDDGYLSASLEEILSELPEELEFELDEVHAMLTLLQSFDPPGVGARNAAECLSLQLRRIEHPQRELAMTIVRHHL
ELLAARDYTRLKKALQVDDMQLKAAHELIRSLAPYPGHAYSRPEADFVVPDVFVRKSGHNWIAQLNPDVMPRLRINDMYA
QILRGAKGDTGAAGLQQKLQEARWLIKNIQQRFDTILRVAQAIVERQKNFFTHGEIAMRPLVLREIADTLGLHESTISRV
TTNKYMATPMGTFELKYFFGSHVSTETGGAASSTAIRALIKQLIGAEDPRNPLSDSRIAELLGEQGFVVARRTVAKYREA
LKIPAVNLRKSL

Nucleotide


Download         Length: 1479 bp        

>NTDB_id=697509 NDR89_RS24695 WP_252253929.1 3200619..3202097(+) (rpoN/rpoN1) [Cupriavidus gilardii strain QJ1]
ATGAAACCGTCGCTACAGCTACGCCTCTCCCAGCATCTGGCCCTGACGCCGCAGCTGCAGCAGTCCATCCGGCTGTTGCA
GTTGTCCACGCTGGAACTGCAACAGGAAGTCGAGCAGGCGCTGACCGAGAATCCGCTGCTCGAACGCGAAAACGACTGGA
TCGAAAGCCCGCTGCGCGTTGCCGCCGACGGGTCGGTCAATGTGCAGACCGCCACCACGACCCCGCCCGCCGAACCGGCG
GCGCCGGCGGACTCGCACGCGGACGGCACCGCCGCAGCCGACGAAGGCTATGCCGACGGCGCGGGCGACGATTATGGCGG
CGACTGGAGCCTGGACGACTTCGCCCGCCGTCCGCAAAGCGATGAGGACGAGAAAACACCGCTGCAATTGCGCGATGCCG
AGCCCACGCTGCGCGAATATCTGATGGAGCAATTGACGCCGCTGAAAATCTCGACGCGCGACAAGGGCCTGGCGATTTTC
CTGATCGAATCGCTCGACGACGACGGTTATCTGAGCGCGTCGCTCGAGGAAATCCTGTCCGAATTGCCGGAAGAGCTCGA
ATTCGAACTCGACGAAGTGCATGCGATGCTGACGCTGCTGCAAAGCTTCGATCCGCCCGGGGTCGGCGCACGCAACGCCG
CAGAGTGCCTGTCGCTGCAACTGCGCCGCATCGAACATCCGCAGCGCGAGCTGGCGATGACCATCGTCCGCCATCACCTC
GAACTGCTGGCCGCGCGCGACTACACACGGCTGAAGAAGGCGCTGCAGGTCGACGACATGCAGCTGAAGGCCGCGCACGA
GTTGATCCGCTCGCTCGCGCCCTATCCCGGCCACGCCTACAGCCGGCCGGAAGCGGACTTCGTGGTGCCCGATGTATTCG
TGCGCAAGAGCGGCCACAACTGGATCGCCCAGCTCAATCCCGATGTGATGCCGCGGCTACGCATCAACGACATGTATGCG
CAGATCTTGCGCGGTGCGAAAGGCGATACCGGCGCCGCGGGATTGCAGCAGAAACTGCAGGAGGCGCGCTGGCTCATCAA
AAATATCCAGCAGCGTTTCGACACCATTTTGCGCGTCGCACAAGCCATCGTGGAGCGGCAAAAGAATTTCTTTACGCACG
GCGAAATTGCGATGCGCCCCTTGGTTTTGAGGGAGATAGCCGATACACTGGGTCTACACGAGTCGACTATTTCTCGTGTG
ACGACCAACAAGTACATGGCCACCCCGATGGGGACATTCGAGCTGAAATATTTTTTCGGCAGCCATGTATCGACCGAGAC
CGGCGGTGCCGCCTCTTCCACCGCAATCCGTGCGCTGATCAAGCAGCTGATAGGAGCCGAAGACCCCAGAAACCCGTTGT
CCGACAGCCGGATTGCCGAACTGCTGGGGGAACAAGGCTTCGTCGTGGCGCGACGTACCGTCGCCAAATATCGTGAAGCC
TTGAAGATCCCGGCCGTGAACCTTCGCAAGTCTTTGTAG

Domains

Predicted by InterproScan.

Sigma-54 factor, core binding domain (Sigma54_CBD)

(130-319)

Sigma-54, DNA binding domain (Sigma54_DBD)

(335-490)

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

(4-48)


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

79.158

100

0.803