Detailed information    

insolico Bioinformatically predicted

Overview

Name   rpoN/rpoN1   Type   Machinery gene
Locus tag   SD235_RS15960 Genome accession   NZ_CP138378
Coordinates   3367448..3368953 (+) Length   501 a.a.
NCBI ID   WP_042977154.1    Uniprot ID   -
Organism   Burkholderia cepacia strain L303     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 3362448..3373953
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  SD235_RS15935 (SD235_15935) kdsD 3363680..3364663 (+) 984 WP_021162595.1 arabinose 5-phosphate isomerase KdsD -
  SD235_RS15940 (SD235_15940) - 3364663..3365199 (+) 537 WP_021162596.1 KdsC family phosphatase -
  SD235_RS15945 (SD235_15945) lptC 3365203..3365817 (+) 615 WP_021162597.1 LPS export ABC transporter periplasmic protein LptC -
  SD235_RS15950 (SD235_15950) lptA 3365838..3366503 (+) 666 WP_021162598.1 lipopolysaccharide transport periplasmic protein LptA -
  SD235_RS15955 (SD235_15955) lptB 3366500..3367276 (+) 777 WP_021162599.1 LPS export ABC transporter ATP-binding protein -
  SD235_RS15960 (SD235_15960) rpoN/rpoN1 3367448..3368953 (+) 1506 WP_042977154.1 RNA polymerase factor sigma-54 Machinery gene
  SD235_RS15965 (SD235_15965) hpf 3369112..3369471 (+) 360 WP_006477786.1 ribosome hibernation-promoting factor, HPF/YfiA family -
  SD235_RS15970 (SD235_15970) - 3369640..3370179 (+) 540 WP_034195946.1 PTS sugar transporter subunit IIA -
  SD235_RS15975 (SD235_15975) hprK 3370311..3371279 (+) 969 WP_011353227.1 HPr(Ser) kinase/phosphatase -
  SD235_RS15980 (SD235_15980) rapZ 3371355..3372263 (+) 909 WP_021162602.1 RNase adapter RapZ -
  SD235_RS15985 (SD235_15985) - 3372291..3372926 (+) 636 WP_021162603.1 LON peptidase substrate-binding domain-containing protein -

Sequence

Protein


Download         Length: 501 a.a.        Molecular weight: 54827.96 Da        Isoelectric Point: 4.8767

>NTDB_id=902565 SD235_RS15960 WP_042977154.1 3367448..3368953(+) (rpoN/rpoN1) [Burkholderia cepacia strain L303]
MKASLQLRLSQHLALTPQLQQSIRLLQLSTLELQQEVAMAVAQNPLLENDDEWIASPLRVAADGSLIAQTPPAQNTEPAA
TNSSSSSSERAERDEPAGADEYDGYASGDGNDGPQWNLDEFGRASGASDDDDLPPLQVQEAATSLRDHLSAQLRVTQASP
RDRALVMFLIESLDDDGYLTATLDEVLADLPPELEIDCDELNAALALLHSFDPAGVGARSASECLKLQLLRLDPSPTRTL
ALEIVSQHLELLAARDFTRLRKHLKASDDALRDAHTLIRSLEPFPGAAYGKAEADYVVPDIIVKKAGQGWLAELNPEVVP
RLRINNLYANILRNSRGDPSAGSLKQQLQEARWLIKNIQQRFDTILRVAQAIVERQKNFFAHGEIAMRPLVLREIADTLG
LHESTVSRVTTGKYMLTPFGTLEFKYFFGSHVSTDTGGAASSTAIRALIKQLIGAEDPKSPLSDSRIAELLAEQGFVVAR
RTVAKYREALKIPAVNLRKSL

Nucleotide


Download         Length: 1506 bp        

>NTDB_id=902565 SD235_RS15960 WP_042977154.1 3367448..3368953(+) (rpoN/rpoN1) [Burkholderia cepacia strain L303]
ATGAAAGCCAGCCTTCAACTCCGCCTGTCGCAACATCTGGCGCTGACGCCCCAGCTACAGCAGTCGATCCGGCTCCTGCA
GTTGTCGACGCTCGAATTGCAGCAGGAAGTCGCGATGGCCGTCGCGCAGAACCCGCTGCTCGAGAACGACGATGAATGGA
TCGCGAGCCCGCTGCGTGTCGCAGCGGACGGATCGTTGATCGCGCAGACGCCTCCCGCCCAGAACACCGAGCCCGCTGCG
ACAAACAGTAGCAGTTCGTCGAGCGAGCGCGCCGAGCGCGACGAACCGGCCGGCGCGGACGAATACGACGGTTACGCGTC
CGGCGACGGCAACGACGGCCCGCAGTGGAACCTCGACGAATTCGGCCGCGCGAGCGGCGCGTCCGACGACGACGACCTCC
CGCCGCTGCAGGTGCAGGAAGCGGCGACGTCGCTGCGCGACCACCTGTCCGCGCAATTGCGCGTCACGCAGGCCAGCCCG
CGCGATCGCGCGCTCGTGATGTTCCTGATCGAATCGCTCGACGACGACGGCTACCTGACCGCCACGCTCGACGAAGTGCT
CGCCGACCTGCCGCCCGAGCTGGAAATCGACTGCGACGAACTGAACGCGGCGCTCGCGCTGCTGCACAGCTTCGACCCGG
CCGGGGTCGGCGCCCGCTCGGCATCCGAATGCCTGAAGCTGCAGTTGCTGCGCCTCGATCCGTCCCCGACACGCACGCTC
GCACTCGAGATCGTGTCGCAGCATCTCGAACTGCTCGCCGCCCGCGACTTCACGCGGCTGCGCAAGCACCTGAAGGCGAG
CGACGACGCGCTGCGCGACGCGCACACGCTGATCCGCTCGCTGGAGCCGTTCCCCGGCGCCGCATACGGCAAGGCCGAGG
CCGACTACGTCGTGCCCGACATCATCGTGAAGAAGGCCGGCCAGGGATGGCTCGCGGAGCTCAATCCGGAGGTCGTGCCG
CGCCTGCGGATCAACAACCTCTACGCGAACATCCTGCGCAACAGCCGCGGCGATCCGTCCGCCGGATCGCTGAAGCAGCA
GCTCCAGGAAGCACGCTGGCTGATCAAGAACATCCAGCAGCGATTCGACACGATCCTGCGTGTCGCGCAGGCGATTGTCG
AGCGTCAAAAGAACTTCTTTGCGCACGGTGAAATTGCCATGCGCCCCTTGGTTTTGCGGGAAATAGCTGATACGCTGGGC
CTACACGAGTCGACTGTCAGCCGTGTGACAACCGGGAAGTACATGCTGACCCCGTTCGGGACGCTTGAATTTAAGTACTT
CTTCGGATCTCACGTCTCGACCGACACCGGTGGCGCCGCCTCGTCGACCGCCATCCGAGCCCTCATCAAGCAACTGATAG
GAGCTGAAGACCCAAAATCGCCACTTTCGGACAGCCGCATTGCCGAGCTGCTGGCAGAACAGGGGTTCGTGGTCGCGCGC
CGCACGGTTGCGAAGTATCGCGAAGCCCTCAAGATCCCGGCAGTGAATCTGCGCAAGTCTCTTTAA

Domains

Predicted by InterproScan.

Sigma-54 factor, core binding domain (Sigma54_CBD)

(137-328)

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

68.245

100

0.691