Detailed information    

insolico Bioinformatically predicted

Overview

Name   rpoN/rpoN1   Type   Machinery gene
Locus tag   BAMMC406_RS13705 Genome accession   NC_010551
Coordinates   3007376..3008881 (+) Length   501 a.a.
NCBI ID   WP_012364733.1    Uniprot ID   B1YN41
Organism   Burkholderia ambifaria MC40-6     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 3002376..3013881
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  BAMMC406_RS13680 (BamMC406_2704) kdsD 3003609..3004592 (+) 984 WP_006752621.1 arabinose 5-phosphate isomerase KdsD -
  BAMMC406_RS13685 (BamMC406_2705) - 3004592..3005128 (+) 537 WP_011657961.1 KdsC family phosphatase -
  BAMMC406_RS13690 (BamMC406_2706) lptC 3005132..3005746 (+) 615 WP_012364731.1 LPS export ABC transporter periplasmic protein LptC -
  BAMMC406_RS13695 (BamMC406_2707) lptA 3005767..3006432 (+) 666 WP_011657963.1 lipopolysaccharide transport periplasmic protein LptA -
  BAMMC406_RS13700 (BamMC406_2708) lptB 3006429..3007205 (+) 777 WP_012364732.1 LPS export ABC transporter ATP-binding protein -
  BAMMC406_RS13705 (BamMC406_2709) rpoN/rpoN1 3007376..3008881 (+) 1506 WP_012364733.1 RNA polymerase factor sigma-54 Machinery gene
  BAMMC406_RS13710 (BamMC406_2710) hpf 3009039..3009398 (+) 360 WP_006477786.1 ribosome hibernation-promoting factor, HPF/YfiA family -
  BAMMC406_RS13715 (BamMC406_2711) - 3009568..3010107 (+) 540 WP_011657966.1 PTS sugar transporter subunit IIA -
  BAMMC406_RS13720 (BamMC406_2712) hprK 3010237..3011205 (+) 969 WP_011657967.1 HPr(Ser) kinase/phosphatase -
  BAMMC406_RS13725 (BamMC406_2713) rapZ 3011281..3012189 (+) 909 WP_041489859.1 RNase adapter RapZ -
  BAMMC406_RS13730 (BamMC406_2714) - 3012216..3012851 (+) 636 WP_006752630.1 LON peptidase substrate-binding domain-containing protein -

Sequence

Protein


Download         Length: 501 a.a.        Molecular weight: 54777.94 Da        Isoelectric Point: 4.8823

>NTDB_id=30491 BAMMC406_RS13705 WP_012364733.1 3007376..3008881(+) (rpoN/rpoN1) [Burkholderia ambifaria MC40-6]
MKASLQLRLSQHLALTPQLQQSIRLLQLSTLELQQEVAMAVAQNPLLENEDEWITSPLRVASDGSLIAQGPSGQNIEPGP
ASGSSPSSERAERDEPAGADEYDGYGSGEAGDGPQWNLDEYGRSSGASDDDDLPPLQVQEAATSLRDHLSAQLRMTQASP
RDRALVMFLIESLDDDGYLTASLDEVLSDLPPELEVDCDELNAALALLHSFDPAGVGARSASECLKLQLLRLDPSPTRTL
ALEIVSQHLELLAARDFTRLRKHLKASDDALRDAHALIRSLEPFPGAAYGKAEADYVVPDIIVKKAGQGWLAELNPEVMP
RLRINNLYANILRNSRGDPSAGSLKQQLQEARWLIKNIQQRFDTILRVAQAIVERQKNFFAHGEIAMRPLVLREIADTLG
LHESTVSRVTTGKYMLTPFGTLEFKYFFGSHVSTDTGGAASSTAIRALIKQLIGAEDPKSPLSDSRIAELLAEQGFVVAR
RTVAKYREALKIPAVNLRKSL

Nucleotide


Download         Length: 1506 bp        

>NTDB_id=30491 BAMMC406_RS13705 WP_012364733.1 3007376..3008881(+) (rpoN/rpoN1) [Burkholderia ambifaria MC40-6]
ATGAAAGCCAGCCTTCAACTCCGCCTGTCGCAACACCTGGCGCTGACCCCGCAACTGCAGCAGTCGATCCGGCTCCTGCA
ACTGTCGACGCTCGAACTGCAGCAGGAAGTCGCGATGGCCGTCGCGCAAAATCCGTTGCTCGAAAACGAAGACGAATGGA
TCACGAGTCCGCTGCGTGTCGCGTCGGACGGATCGCTGATCGCACAGGGGCCTTCCGGACAGAACATCGAGCCGGGCCCC
GCGAGCGGCAGCAGCCCGTCGAGCGAGCGCGCCGAGCGCGACGAGCCGGCCGGCGCCGACGAATACGACGGCTACGGGTC
CGGCGAGGCCGGCGACGGCCCGCAGTGGAATCTTGACGAGTACGGCCGCTCGAGCGGCGCGTCGGACGATGACGACCTCC
CGCCGCTGCAGGTGCAGGAAGCCGCGACGTCGCTGCGCGACCACCTGTCCGCGCAGTTGCGCATGACGCAGGCCAGCCCG
CGCGATCGCGCACTCGTGATGTTCCTGATCGAATCGCTCGACGACGACGGCTACCTGACCGCGTCGCTCGACGAAGTGCT
CTCCGACCTGCCGCCGGAACTGGAAGTCGACTGCGACGAACTGAATGCGGCGCTCGCGCTGCTGCACAGCTTCGACCCGG
CCGGGGTCGGGGCCCGCTCGGCCTCCGAATGCCTGAAGCTGCAGTTGCTGCGCCTCGATCCGTCCCCCACCCGCACGCTC
GCACTGGAGATCGTGTCGCAGCACCTCGAGCTGCTCGCGGCGCGCGACTTCACGCGGCTGCGCAAGCACCTGAAGGCGAG
CGACGACGCGCTGCGCGACGCGCACGCGCTGATCCGCTCGCTGGAGCCGTTCCCAGGCGCCGCGTACGGCAAGGCCGAGG
CCGACTACGTCGTGCCCGACATCATCGTGAAGAAGGCCGGCCAGGGCTGGCTCGCGGAACTCAATCCTGAAGTGATGCCG
CGCCTGCGGATCAACAACCTGTACGCGAACATCCTGCGCAACAGCCGCGGCGATCCGTCGGCCGGGTCGCTCAAGCAGCA
GCTCCAGGAAGCACGCTGGCTGATCAAGAACATTCAGCAGCGATTCGACACGATCCTGCGTGTCGCGCAGGCCATTGTCG
AACGTCAAAAGAATTTCTTCGCGCATGGTGAAATCGCCATGCGCCCCTTGGTTTTGCGGGAAATAGCTGATACGCTGGGC
CTACACGAGTCGACTGTCAGCCGTGTGACAACAGGCAAGTACATGCTGACCCCGTTCGGTACGCTGGAATTCAAGTACTT
CTTCGGGTCACACGTTTCGACCGACACCGGAGGCGCCGCATCGTCGACCGCCATCCGAGCCCTGATCAAGCAACTGATAG
GAGCTGAAGACCCAAAATCGCCACTTTCGGACAGCCGCATTGCCGAGCTGCTGGCAGAACAGGGTTTCGTGGTTGCGCGC
CGCACGGTTGCCAAGTATCGCGAAGCCCTCAAAATCCCGGCAGTGAATCTGCGCAAGTCTCTTTAG

Domains

Predicted by InterproScan.

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

(4-48)

Sigma-54, DNA binding domain (Sigma54_DBD)

(344-499)

Sigma-54 factor, core binding domain (Sigma54_CBD)

(137-328)


Secondary structure

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



3D structure

Source ID Structure
  AlphaFold DB B1YN41

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

68.911

100

0.695

Multiple sequence alignment