Detailed information    

insolico Bioinformatically predicted

Overview

Name   rpoN/rpoN1   Type   Machinery gene
Locus tag   LL999_RS13960 Genome accession   NZ_CP086291
Coordinates   3020717..3022222 (+) Length   501 a.a.
NCBI ID   WP_175678165.1    Uniprot ID   -
Organism   Burkholderia ambifaria strain B21-008     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 3015717..3027222
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  LL999_RS13935 (LL999_13950) kdsD 3016950..3017933 (+) 984 WP_175730482.1 arabinose 5-phosphate isomerase KdsD -
  LL999_RS13940 (LL999_13955) - 3017933..3018469 (+) 537 WP_105833002.1 KdsC family phosphatase -
  LL999_RS13945 (LL999_13960) lptC 3018473..3019087 (+) 615 WP_126228527.1 LPS export ABC transporter periplasmic protein LptC -
  LL999_RS13950 (LL999_13965) lptA 3019108..3019773 (+) 666 WP_011657963.1 lipopolysaccharide transport periplasmic protein LptA -
  LL999_RS13955 (LL999_13970) lptB 3019770..3020546 (+) 777 WP_006752625.1 LPS export ABC transporter ATP-binding protein -
  LL999_RS13960 (LL999_13975) rpoN/rpoN1 3020717..3022222 (+) 1506 WP_175678165.1 RNA polymerase factor sigma-54 Machinery gene
  LL999_RS13965 (LL999_13980) hpf 3022380..3022739 (+) 360 WP_006477786.1 ribosome hibernation-promoting factor, HPF/YfiA family -
  LL999_RS13970 (LL999_13985) - 3022909..3023448 (+) 540 WP_011657966.1 PTS sugar transporter subunit IIA -
  LL999_RS13975 (LL999_13990) hprK 3023578..3024546 (+) 969 WP_011657967.1 HPr(Ser) kinase/phosphatase -
  LL999_RS13980 (LL999_13995) rapZ 3024622..3025530 (+) 909 WP_041489859.1 RNase adapter RapZ -
  LL999_RS13985 (LL999_14000) - 3025557..3026192 (+) 636 WP_175665596.1 LON peptidase substrate-binding domain-containing protein -

Sequence

Protein


Download         Length: 501 a.a.        Molecular weight: 54742.82 Da        Isoelectric Point: 4.9329

>NTDB_id=624187 LL999_RS13960 WP_175678165.1 3020717..3022222(+) (rpoN/rpoN1) [Burkholderia ambifaria strain B21-008]
MKASLQLRLSQHLALTPQLQQSIRLLQLSTLELQQEVAMAVAQNPLLENEDEWITSPLRVASDGSLIAQGPSGQNIEPGP
ANGSSQSSERAERDEPAGADQYDGYGSGDAGDGPQWNLDEYGRSSGASDDDDLPPLQVQEAATSLRDHLSAQLRVTQASP
RDRALVMFLIESLDDDGYLTASLDEVLSDLPPELEVDGDELNAALALLHSFDPAGVGARSASECLKLQLLRLDPSPTRTL
ALEIVSQHLELLAARDFTRLRKHLKASDDALRDAHALIRSLEPFPGAAYGKAEADYVVPDIIVKKAGQGWLAELNPEVMP
RLRINNLYANILRNSRGDPSAGSLKQQLQEARWLIKNIQQRFDTILRVAQAIVERQKNFFAHGEIAMRPLVLREIADTLG
LHESTVSRVTTGKYMLTPFGTLEFKYFFGSHVSTDTGGAASSTAIRALIKQLIGAEDPKSPLSDSRIAELLAEQGFVVAR
RTVAKYREALKIPAVNLRKSL

Nucleotide


Download         Length: 1506 bp        

>NTDB_id=624187 LL999_RS13960 WP_175678165.1 3020717..3022222(+) (rpoN/rpoN1) [Burkholderia ambifaria strain B21-008]
ATGAAAGCCAGCCTTCAACTCCGCCTGTCGCAACACCTGGCGCTGACCCCGCAACTGCAGCAGTCGATCCGGCTCCTGCA
ACTGTCGACGCTCGAACTGCAGCAGGAAGTCGCGATGGCCGTCGCGCAAAATCCGTTGCTCGAAAACGAAGACGAATGGA
TCACGAGTCCGCTGCGTGTCGCATCGGACGGATCGCTGATCGCGCAGGGGCCTTCCGGACAGAACATCGAGCCGGGCCCC
GCGAACGGCAGCAGCCAGTCGAGCGAGCGCGCCGAGCGCGACGAGCCGGCCGGCGCCGACCAATACGACGGCTACGGGTC
GGGCGACGCCGGCGACGGCCCGCAGTGGAATCTGGACGAGTACGGCCGCTCGAGCGGCGCGTCGGACGATGACGACCTCC
CGCCGCTGCAGGTGCAGGAAGCCGCGACGTCGCTGCGCGACCACCTGTCCGCGCAATTGCGCGTCACGCAGGCCAGCCCG
CGCGATCGCGCGCTCGTGATGTTCCTGATCGAATCGCTCGACGACGACGGCTACCTGACCGCATCGCTCGACGAAGTGCT
CTCCGACCTGCCGCCGGAACTGGAAGTCGACGGCGACGAACTGAATGCGGCGCTCGCGCTGCTGCACAGCTTCGACCCGG
CCGGGGTCGGGGCCCGCTCCGCCTCCGAATGCCTGAAGCTGCAGTTGCTGCGGCTCGATCCGTCCCCCACGCGCACGCTC
GCGCTGGAGATCGTGTCGCAGCACCTCGAACTGCTCGCCGCGCGCGACTTCACGCGGCTGCGCAAGCACCTGAAGGCGAG
CGACGACGCGCTGCGCGACGCGCACGCGCTGATCCGCTCGCTGGAGCCGTTCCCCGGCGCCGCGTACGGCAAGGCCGAGG
CCGACTACGTCGTGCCCGACATCATCGTGAAGAAGGCCGGCCAGGGCTGGCTCGCGGAACTCAATCCGGAAGTGATGCCG
CGCCTGCGGATCAACAACCTGTACGCGAACATCCTGCGCAACAGCCGCGGCGATCCGTCGGCCGGGTCGCTCAAGCAGCA
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