Detailed information    

insolico Bioinformatically predicted

Overview

Name   rpoN/rpoN1   Type   Machinery gene
Locus tag   AAFR80_RS12870 Genome accession   NZ_CP152371
Coordinates   213009..214514 (-) Length   501 a.a.
NCBI ID   WP_105832999.1    Uniprot ID   -
Organism   Burkholderia ambifaria strain CF3     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 208009..219514
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  AAFR80_RS12845 (AAFR80_12845) - 209039..209674 (-) 636 WP_006752630.1 LON peptidase substrate-binding domain-containing protein -
  AAFR80_RS12850 (AAFR80_12850) rapZ 209701..210609 (-) 909 WP_041489859.1 RNase adapter RapZ -
  AAFR80_RS12855 (AAFR80_12855) hprK 210685..211653 (-) 969 WP_011657967.1 HPr(Ser) kinase/phosphatase -
  AAFR80_RS12860 (AAFR80_12860) - 211783..212295 (-) 513 WP_045554931.1 PTS sugar transporter subunit IIA -
  AAFR80_RS12865 (AAFR80_12865) raiA 212492..212851 (-) 360 WP_006477786.1 ribosome-associated translation inhibitor RaiA -
  AAFR80_RS12870 (AAFR80_12870) rpoN/rpoN1 213009..214514 (-) 1506 WP_105832999.1 RNA polymerase factor sigma-54 Machinery gene
  AAFR80_RS12875 (AAFR80_12875) lptB 214685..215461 (-) 777 WP_342612802.1 LPS export ABC transporter ATP-binding protein -
  AAFR80_RS12880 (AAFR80_12880) lptA 215458..216123 (-) 666 WP_165752051.1 lipopolysaccharide transport periplasmic protein LptA -
  AAFR80_RS12885 (AAFR80_12885) lptC 216144..216758 (-) 615 WP_011657962.1 LPS export ABC transporter periplasmic protein LptC -
  AAFR80_RS12890 (AAFR80_12890) - 216762..217298 (-) 537 WP_105833002.1 HAD family hydrolase -
  AAFR80_RS12895 (AAFR80_12895) kdsD 217298..218281 (-) 984 WP_011657960.1 arabinose 5-phosphate isomerase KdsD -

Sequence

Protein


Download         Length: 501 a.a.        Molecular weight: 54712.79 Da        Isoelectric Point: 4.8796

>NTDB_id=988699 AAFR80_RS12870 WP_105832999.1 213009..214514(-) (rpoN/rpoN1) [Burkholderia ambifaria strain CF3]
MKASLQLRLSQHLALTPQLQQSIRLLQLSTLELQQEVAMAVAQNPLLENEDEWITSPLRVASDGSLIAQGPSGQNIEPGP
ANGSSPSSERAERDEPAGADEYDGYGSGDAGDGPQWNLDEYGRSSGASDDDDLPPLQVQEAATSLRDHLSAQLRVTQASP
RDRALVMFLIESLDDDGYLTASLDEVLSDLPPELEVDGDELNAALALLHSFDPAGVGARSASECLKLQLLRLDPSPTRTL
ALEIVSQHLELLAARDFTRLRKHLKASDDALRDAHALIRSLEPFPGAAYGKAEADYVVPDIIVKKAGQGWLAELNPEVMP
RLRINNLYANILRNSRGDPSAGSLKQQLQEARWLIKNIQQRFDTILRVAQAIVERQKNFFAHGEIAMRPLVLREIADTLG
LHESTVSRVTTGKYMLTPFGTLEFKYFFGSHVSTDTGGAASSTAIRALIKQLIGAEDPKSPLSDSRIAELLAEQGFVVAR
RTVAKYREALKIPAVNLRKSL

Nucleotide


Download         Length: 1506 bp        

>NTDB_id=988699 AAFR80_RS12870 WP_105832999.1 213009..214514(-) (rpoN/rpoN1) [Burkholderia ambifaria strain CF3]
ATGAAAGCCAGCCTTCAACTCCGCCTGTCGCAACACCTGGCGCTGACCCCGCAACTGCAGCAGTCGATCCGGCTCCTGCA
ACTGTCGACGCTCGAACTGCAGCAGGAAGTCGCGATGGCCGTCGCGCAAAATCCGTTGCTCGAAAACGAAGACGAATGGA
TCACGAGTCCGCTGCGTGTCGCGTCGGACGGATCGCTGATCGCGCAGGGGCCTTCCGGACAGAACATCGAGCCGGGCCCC
GCGAACGGCAGCAGCCCGTCGAGCGAACGCGCCGAGCGCGACGAGCCGGCCGGCGCCGACGAATACGACGGCTACGGGTC
GGGCGACGCCGGCGACGGCCCGCAGTGGAATCTGGACGAGTACGGCCGCTCGAGCGGTGCGTCGGACGATGACGACCTCC
CGCCGCTGCAGGTGCAGGAAGCCGCGACGTCGCTGCGCGACCATCTGTCCGCGCAATTGCGCGTCACGCAGGCCAGCCCG
CGCGATCGCGCACTCGTGATGTTCCTGATCGAATCGCTCGACGACGACGGCTACCTGACCGCATCGCTCGACGAAGTGCT
CTCCGACCTGCCGCCGGAACTGGAAGTCGACGGCGACGAACTGAATGCGGCGCTCGCGCTGCTGCACAGCTTCGACCCTG
CCGGGGTCGGGGCCCGCTCGGCCTCCGAATGCCTGAAGCTGCAGTTGCTGCGGCTCGATCCGTCCCCCACCCGCACGCTC
GCGCTGGAGATCGTGTCGCAGCACCTCGAGCTGCTCGCCGCGCGCGACTTCACGCGGCTGCGCAAGCACCTGAAGGCGAG
CGACGACGCGCTGCGCGACGCGCACGCGCTGATCCGCTCGCTGGAGCCGTTCCCCGGCGCCGCGTACGGCAAGGCCGAGG
CCGACTACGTCGTGCCCGACATCATCGTGAAGAAGGCCGGCCAGGGCTGGCTCGCGGAACTCAATCCGGAAGTGATGCCG
CGGCTGCGGATCAACAACCTGTACGCGAACATCCTGCGCAACAGCCGCGGCGATCCGTCGGCCGGGTCGCTCAAGCAGCA
GCTCCAGGAAGCACGCTGGCTGATCAAGAACATCCAGCAGCGATTCGACACGATCCTGCGTGTCGCGCAGGCCATTGTCG
AACGTCAAAAGAATTTCTTCGCGCATGGTGAAATCGCCATGCGCCCCTTGGTTTTGCGGGAAATAGCTGATACGCTGGGC
CTACACGAGTCGACTGTCAGCCGTGTGACAACAGGCAAGTACATGCTGACCCCGTTCGGTACGCTGGAATTCAAGTACTT
CTTCGGGTCACACGTTTCGACCGACACCGGAGGCGCCGCATCGTCGACCGCCATCCGAGCCCTGATCAAGCAACTGATAG
GAGCTGAAGACCCAAAATCGCCACTTTCGGACAGCCGCATTGCCGAGCTGCTGGCAGAACAGGGTTTCGTGGTTGCGCGC
CGCACGGTTGCCAAGTATCGCGAAGCCCTCAAAATCCCGGCAGTGAATCTGCGCAAGTCTCTTTAG

Domains

Predicted by InterproScan.

Sigma-54, DNA binding domain (Sigma54_DBD)

(344-499)

Sigma-54 factor, core binding domain (Sigma54_CBD)

(137-328)

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

68.515

100

0.691

Multiple sequence alignment