Detailed information    

insolico Bioinformatically predicted

Overview

Name   rpoN/rpoN1   Type   Machinery gene
Locus tag   QS308_RS12700 Genome accession   NZ_CP128229
Coordinates   2913233..2914738 (+) Length   501 a.a.
NCBI ID   WP_153076324.1    Uniprot ID   -
Organism   Paraburkholderia bonniea strain BbQS433     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 2908233..2919738
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  QS308_RS12675 (QS308_12675) kdsD 2909430..2910413 (+) 984 WP_153076319.1 arabinose 5-phosphate isomerase KdsD -
  QS308_RS12680 (QS308_12680) - 2910413..2910952 (+) 540 WP_153076320.1 HAD family hydrolase -
  QS308_RS12685 (QS308_12685) lptC 2910957..2911559 (+) 603 WP_153076321.1 LPS export ABC transporter periplasmic protein LptC -
  QS308_RS12690 (QS308_12690) lptA 2911591..2912271 (+) 681 WP_153076322.1 lipopolysaccharide transport periplasmic protein LptA -
  QS308_RS12695 (QS308_12695) lptB 2912268..2913047 (+) 780 WP_153076323.1 LPS export ABC transporter ATP-binding protein -
  QS308_RS12700 (QS308_12700) rpoN/rpoN1 2913233..2914738 (+) 1506 WP_153076324.1 RNA polymerase factor sigma-54 Machinery gene
  QS308_RS12705 (QS308_12705) raiA 2914898..2915257 (+) 360 WP_153076325.1 ribosome-associated translation inhibitor RaiA -
  QS308_RS12710 (QS308_12710) - 2915523..2916038 (+) 516 WP_153076326.1 PTS sugar transporter subunit IIA -
  QS308_RS12715 (QS308_12715) hprK 2916162..2917130 (+) 969 WP_153076327.1 HPr(Ser) kinase/phosphatase -
  QS308_RS12720 (QS308_12720) rapZ 2917214..2918107 (+) 894 WP_153076328.1 RNase adapter RapZ -
  QS308_RS12725 (QS308_12725) - 2918164..2918799 (+) 636 WP_286273828.1 LON peptidase substrate-binding domain-containing protein -

Sequence

Protein


Download         Length: 501 a.a.        Molecular weight: 55326.46 Da        Isoelectric Point: 5.1578

>NTDB_id=846861 QS308_RS12700 WP_153076324.1 2913233..2914738(+) (rpoN/rpoN1) [Paraburkholderia bonniea strain BbQS433]
MKASLQLRLSQHLALTPQLQQSIRLLQLSTLELQQEVATAIAQNPLLENEDDWIASPLRVAADGSLITQTRNSTQSETSA
HSPSTSATGTEREPSEPQGVDEYNGLAADSADASQWNLDDYGRSGNASADDDLPPLQVHESGTSLRDHLLAQLCVTQASP
RDRALVTFLIESLDDDGYLTATLEEIQADLPEELEVDADELKTALSLLHSFDPVGVGARSAAECLRLQLLRLDTSPTRTL
ALEIVDHHLELLAARDFIRLRKHLKASDDELRDAHALIRSLEPFPGAMYGKTEADYVVPDVLVHKTAQGWRAELNPEVMP
KLRINNLYANILRNNRSDPGSGSLRQQLQEARWLIKNIQQRFDTILRVAQAIVERQKSFFMHGEIAMRPLVLREIADTLG
LHESTVSRVTTGKYLLTPFGTLEFKYFFGSHVSTDTGGAASSTAIRALIKQLIGAENPTTPLSDSRIAELLAEQGFVVAR
RTVAKYRETLKIPAVSLRKSL

Nucleotide


Download         Length: 1506 bp        

>NTDB_id=846861 QS308_RS12700 WP_153076324.1 2913233..2914738(+) (rpoN/rpoN1) [Paraburkholderia bonniea strain BbQS433]
ATGAAAGCTAGCCTCCAACTCCGCCTCTCCCAGCATCTTGCGCTGACTCCCCAACTGCAGCAGTCCATTCGGCTGCTGCA
GTTGTCTACGCTTGAACTTCAGCAAGAAGTCGCCACGGCGATTGCACAAAACCCCCTGCTTGAAAACGAAGACGACTGGA
TCGCCAGTCCATTGCGCGTGGCAGCAGACGGCTCGCTCATCACCCAGACACGCAATAGCACCCAGTCCGAAACCAGCGCT
CACTCGCCATCAACCTCTGCCACCGGCACCGAACGCGAACCCAGCGAGCCGCAAGGCGTTGACGAATACAACGGTCTTGC
TGCCGACAGCGCGGATGCCAGCCAATGGAATCTCGACGACTACGGCCGCTCTGGCAACGCATCCGCCGATGACGACCTGC
CACCGCTTCAGGTGCACGAATCCGGCACATCGTTGCGCGATCATCTGCTCGCGCAACTGTGCGTGACCCAGGCCAGCCCG
CGCGACCGGGCGCTCGTCACCTTCCTGATCGAATCGCTCGATGACGATGGCTATCTCACCGCGACACTCGAAGAAATCCA
GGCAGATTTGCCTGAAGAACTTGAAGTCGATGCGGATGAACTAAAAACTGCACTCTCATTACTGCACAGCTTTGATCCTG
TGGGAGTGGGCGCACGCTCTGCGGCAGAGTGCCTCCGGCTGCAATTGCTCCGGCTGGACACATCGCCCACCCGCACACTT
GCGCTCGAAATTGTCGACCACCATTTAGAGTTGCTTGCGGCACGCGACTTCATCCGGCTGCGCAAACACCTGAAAGCCAG
CGACGACGAACTGCGTGACGCACATGCGCTGATCCGCTCGCTTGAACCCTTTCCTGGTGCGATGTATGGCAAGACCGAAG
CAGACTACGTCGTGCCTGATGTGCTGGTACACAAAACGGCTCAAGGATGGCGTGCGGAACTCAATCCAGAGGTCATGCCG
AAACTGCGCATCAATAATCTGTACGCCAATATTCTGCGCAACAACCGCAGCGATCCTGGCAGCGGCTCGCTGCGCCAGCA
GCTTCAGGAAGCCCGCTGGCTCATCAAGAATATCCAGCAAAGATTCGACACTATTCTGCGTGTAGCGCAAGCCATTGTTG
AACGCCAGAAGAGCTTTTTCATGCACGGTGAAATTGCCATGCGGCCCTTGGTTTTGCGAGAAATTGCTGATACGCTGGGG
CTACACGAGTCGACGGTCTCGCGTGTCACTACAGGCAAGTACTTGCTTACTCCTTTCGGCACACTTGAGTTCAAGTACTT
CTTCGGATCACACGTTTCGACCGACACCGGGGGCGCAGCGTCTTCCACAGCCATACGCGCACTCATCAAGCAACTGATAG
GAGCGGAAAACCCCACCACCCCTCTTTCAGACAGCCGCATAGCCGAACTGCTGGCAGAACAGGGTTTCGTCGTTGCCCGA
CGCACTGTGGCCAAATACCGCGAAACCCTCAAAATCCCAGCCGTCAGCCTGCGCAAATCTCTGTAG

Domains

Predicted by InterproScan.

Sigma-54 factor, core binding domain (Sigma54_CBD)

(138-328)

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

(4-48)

Sigma-54, DNA binding domain (Sigma54_DBD)

(344-499)


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

65.936

100

0.661