Detailed information    

insolico Bioinformatically predicted

Overview

Name   rpoN/rpoN1   Type   Machinery gene
Locus tag   GIY62_RS08535 Genome accession   NZ_CP066798
Coordinates   1852435..1853946 (+) Length   503 a.a.
NCBI ID   WP_042626037.1    Uniprot ID   -
Organism   Burkholderia plantarii strain KACC 18964     
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 1854673..1863402 1852435..1853946 flank 727


Gene organization within MGE regions


Location: 1852435..1863402
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  GIY62_RS08535 (GIY62_08510) rpoN/rpoN1 1852435..1853946 (+) 1512 WP_042626037.1 RNA polymerase factor sigma-54 Machinery gene
  GIY62_RS08540 (GIY62_08515) raiA 1854098..1854457 (+) 360 WP_042626038.1 ribosome-associated translation inhibitor RaiA -
  GIY62_RS08545 (GIY62_08520) ptsN 1854673..1855185 (+) 513 WP_042626039.1 PTS IIA-like nitrogen regulatory protein PtsN -
  GIY62_RS08550 (GIY62_08525) hprK 1855326..1856294 (+) 969 WP_015877041.1 HPr(Ser) kinase/phosphatase -
  GIY62_RS08555 (GIY62_08530) rapZ 1856368..1857261 (+) 894 WP_042626040.1 RNase adapter RapZ -
  GIY62_RS08560 (GIY62_08535) - 1857292..1857927 (+) 636 WP_042626041.1 LON peptidase substrate-binding domain-containing protein -
  GIY62_RS08565 (GIY62_08540) mutY 1857983..1859092 (-) 1110 WP_055139273.1 A/G-specific adenine glycosylase -
  GIY62_RS08570 (GIY62_08545) mutM 1859097..1859924 (-) 828 WP_070107969.1 bifunctional DNA-formamidopyrimidine glycosylase/DNA-(apurinic or apyrimidinic site) lyase -
  GIY62_RS08575 (GIY62_08550) - 1860012..1861859 (+) 1848 WP_055139275.1 tetratricopeptide repeat protein -
  GIY62_RS08580 (GIY62_08555) lolB 1861856..1862485 (+) 630 WP_304992161.1 lipoprotein insertase outer membrane protein LolB -
  GIY62_RS08585 (GIY62_08560) ispE 1862524..1863402 (+) 879 WP_304992162.1 4-(cytidine 5'-diphospho)-2-C-methyl-D-erythritol kinase -

Sequence

Protein


Download         Length: 503 a.a.        Molecular weight: 55163.02 Da        Isoelectric Point: 4.8354

>NTDB_id=522617 GIY62_RS08535 WP_042626037.1 1852435..1853946(+) (rpoN/rpoN1) [Burkholderia plantarii strain KACC 18964]
MKASLQLRLSQHLALTPQLQQSIRLLQLSTLELQQEVAMAVAQNPLLENDDEWIASPLRVAADGSLIAQTPPSSTPEPMQ
GASSGSDSSSGERSERDDASGGDDYDSYNSGDNDSGQWNLDDYGRASGASDDDDLPPLQVHETSTSLRDHLSAQLRVTQA
SPRDRALITFLIESLDDDGYLGATLDEVHADLPEELEVELDELAAALALLHSFDPAGVGARSASECLRLQLIRLDPSPTR
ALALDIVSQHLELLAARDFTRLRKQLKANDDELRDAHALIRSLEPFPGAAYGKAEADYVVPDIMVKKSGQNWLAELNPEV
VPKLRINHLYANILRNSRGDPGAGSLKQQLQEARWLIKNIQQRFETILRVAQAIVERQKNFFAHGEIAMRPLVLREIADT
LGLHESTVSRVTTGKYMLTPFGTLEFKYFFGSHVSTDTGGAASSTAIRALIKQLIGAEDPKSPLSDSRIAELLAEQGFVV
ARRTVAKYREALRIPAVNLRKSL

Nucleotide


Download         Length: 1512 bp        

>NTDB_id=522617 GIY62_RS08535 WP_042626037.1 1852435..1853946(+) (rpoN/rpoN1) [Burkholderia plantarii strain KACC 18964]
ATGAAAGCCAGCCTCCAACTCCGCCTGTCGCAGCACCTCGCGCTGACCCCCCAGTTGCAGCAGTCGATCCGGCTGCTGCA
ACTGTCGACGCTCGAACTGCAGCAGGAAGTCGCGATGGCCGTCGCGCAGAACCCGCTGCTCGAAAACGACGACGAATGGA
TCGCGAGCCCGCTGCGCGTGGCCGCCGACGGCTCGCTGATCGCGCAGACGCCGCCGTCCTCGACGCCCGAGCCGATGCAG
GGCGCCTCGTCCGGCTCCGACTCGTCCTCGGGTGAGCGCAGCGAACGCGACGATGCCTCGGGCGGCGACGACTACGACAG
CTACAACAGCGGCGACAACGATTCGGGCCAGTGGAATCTCGACGATTACGGCCGCGCCTCGGGCGCCTCCGACGACGACG
ATCTCCCGCCGCTGCAAGTCCACGAGACCTCGACCTCGCTGCGCGACCATCTGTCGGCGCAGCTGCGCGTCACGCAGGCG
AGCCCGCGCGACCGTGCGCTGATCACGTTCCTGATCGAATCGCTCGACGATGACGGCTACCTCGGCGCGACGCTCGACGA
AGTCCACGCCGACTTGCCGGAAGAACTCGAGGTCGAACTCGACGAGCTGGCCGCCGCGCTCGCGCTGCTGCACAGCTTCG
ATCCGGCCGGCGTCGGCGCCCGTTCGGCGTCCGAATGCCTGCGCCTGCAGCTGATCCGGCTCGATCCGTCCCCCACGCGT
GCGCTCGCGCTCGACATCGTCTCCCAGCACCTCGAACTGCTCGCCGCGCGCGATTTCACGCGGCTGCGCAAGCAGCTGAA
GGCGAACGACGACGAGCTGCGCGACGCGCATGCGCTGATCCGCTCGCTCGAGCCGTTCCCGGGCGCGGCCTACGGCAAGG
CCGAGGCCGACTACGTGGTGCCCGACATCATGGTCAAGAAGAGCGGCCAGAACTGGCTCGCGGAGCTGAACCCGGAGGTC
GTGCCGAAACTGCGCATCAACCACCTGTACGCCAACATCCTGCGCAACAGCCGCGGCGATCCGGGTGCCGGCTCGCTGAA
ACAGCAGCTCCAGGAAGCGCGCTGGCTGATCAAGAACATCCAGCAGCGATTCGAGACGATCCTGCGTGTCGCGCAGGCGA
TCGTCGAGCGTCAGAAGAACTTTTTTGCACATGGCGAAATCGCCATGCGCCCCTTGGTTTTGCGGGAAATAGCTGATACG
CTGGGCCTACACGAGTCAACTGTCTCGCGTGTGACAACCGGCAAGTACATGCTGACCCCGTTCGGCACTCTTGAATTTAA
GTACTTCTTCGGATCGCACGTTTCGACGGATACCGGTGGCGCCGCCTCATCCACGGCGATCCGCGCCCTCATCAAGCAAC
TGATAGGAGCCGAAGACCCGAAATCTCCTCTATCGGACAGCCGAATCGCCGAACTGCTGGCGGAACAGGGATTCGTGGTC
GCGCGCCGCACGGTCGCGAAGTATCGCGAAGCCCTCAGGATCCCGGCAGTCAACCTGCGCAAGTCTCTGTAG

Domains

Predicted by InterproScan.

Sigma-54 factor, core binding domain (Sigma54_CBD)

(140-330)

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

(4-48)

Sigma-54, DNA binding domain (Sigma54_DBD)

(346-501)


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

67.85

100

0.684