Detailed information    

insolico Bioinformatically predicted

Overview

Name   rpoN/rpoN1   Type   Machinery gene
Locus tag   NDK50_RS01950 Genome accession   NZ_CP099394
Coordinates   414896..416410 (-) Length   504 a.a.
NCBI ID   WP_272627970.1    Uniprot ID   -
Organism   Paraburkholderia bryophila strain CA002     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 409896..421410
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  NDK50_RS01925 (NDK50_01915) - 410783..411418 (-) 636 WP_035553568.1 LON peptidase substrate-binding domain-containing protein -
  NDK50_RS01930 (NDK50_01920) rapZ 411458..412351 (-) 894 WP_111932499.1 RNase adapter RapZ -
  NDK50_RS01935 (NDK50_01925) hprK 412468..413436 (-) 969 WP_012431656.1 HPr(Ser) kinase/phosphatase -
  NDK50_RS01940 (NDK50_01930) - 413579..414094 (-) 516 WP_111932406.1 PTS sugar transporter subunit IIA -
  NDK50_RS01945 (NDK50_01935) hpf 414369..414725 (-) 357 WP_035553562.1 ribosome hibernation-promoting factor, HPF/YfiA family -
  NDK50_RS01950 (NDK50_01940) rpoN/rpoN1 414896..416410 (-) 1515 WP_272627970.1 RNA polymerase factor sigma-54 Machinery gene
  NDK50_RS01955 (NDK50_01945) lptB 416595..417380 (-) 786 WP_105510889.1 LPS export ABC transporter ATP-binding protein -
  NDK50_RS01960 (NDK50_01950) lptA 417377..418048 (-) 672 WP_111932409.1 lipopolysaccharide transport periplasmic protein LptA -
  NDK50_RS01965 (NDK50_01955) lptC 418069..418677 (-) 609 WP_111932410.1 LPS export ABC transporter periplasmic protein LptC -
  NDK50_RS01970 (NDK50_01960) - 418674..419234 (-) 561 WP_035553550.1 KdsC family phosphatase -
  NDK50_RS01975 (NDK50_01965) kdsD 419234..420217 (-) 984 WP_272627976.1 arabinose 5-phosphate isomerase KdsD -

Sequence

Protein


Download         Length: 504 a.a.        Molecular weight: 55346.34 Da        Isoelectric Point: 4.9918

>NTDB_id=699422 NDK50_RS01950 WP_272627970.1 414896..416410(-) (rpoN/rpoN1) [Paraburkholderia bryophila strain CA002]
MKASLQLRLSQHLALTPQLQQSIRLLQLSTLELQQEVSMAISQNPLLENEDDWIASPLRVAADGSLIAQAPNSSAPPDQM
GGNTSSSSSSSERAENGEPQGVDEYNGLSGDSNGDASQWNLDDYGRSGNASDDDDLPPLQIHESSTSLRDHLMAQLRVTQ
AGQRDRALITFLIESLDDDGYLAATLDEVLADLPDELEVDTDELNAALALLHSFDPAGVGARSASECLKLQLLRLDTSPT
RTLALDIVAHHLELLAARDFTRLRKQLKANDDDLRDAHVLIRSLEPFPGAAYGKAEADYVVPDIMVRKTAQGWQAELNPE
VVPKLRINHLYANILRNNRGDPGSGSLRQQLQEARWLIKNIQQRFETILRVAQAIVERQKSFFVHGEIAMRPLVLREIAD
TLGLHESTVSRVTTGKYMLTPFGTLEFKYFFGSHVSTDTGGAASSTAIRALIKQLIGAENPKSPLSDSRIAELLAEQGFV
VARRTVAKYREALKIPAVNLRKSL

Nucleotide


Download         Length: 1515 bp        

>NTDB_id=699422 NDK50_RS01950 WP_272627970.1 414896..416410(-) (rpoN/rpoN1) [Paraburkholderia bryophila strain CA002]
ATGAAAGCCAGCCTCCAACTCCGCCTATCGCAGCATCTTGCGCTGACGCCACAACTGCAGCAGTCCATCCGGCTGCTTCA
GCTGTCTACGCTCGAACTGCAGCAGGAAGTCTCCATGGCGATCTCGCAGAATCCGCTCCTCGAAAACGAGGACGACTGGA
TCGCGAGCCCGTTGCGCGTGGCGGCGGACGGTTCGCTGATTGCGCAAGCGCCCAATTCGTCCGCACCGCCCGACCAGATG
GGCGGCAATACGTCGTCATCGTCCAGCAGCAGCGAGCGCGCCGAGAACGGCGAACCGCAAGGCGTGGACGAATACAACGG
CCTCTCCGGCGACAGCAACGGCGACGCGTCGCAATGGAATCTCGACGACTACGGCCGCTCCGGCAACGCGTCGGACGACG
ACGATCTGCCGCCGCTGCAAATCCACGAATCCAGCACCTCGCTGCGCGATCATCTGATGGCGCAATTGCGCGTGACCCAG
GCGGGTCAACGCGATCGCGCGCTGATCACGTTCCTGATCGAATCGCTCGACGACGACGGCTATCTCGCCGCCACGCTCGA
CGAAGTGCTGGCCGATCTGCCCGACGAACTCGAGGTCGACACCGACGAACTGAATGCCGCGCTCGCGCTGCTGCATAGCT
TCGACCCGGCGGGTGTGGGCGCACGCTCTGCGTCCGAATGTCTCAAGCTGCAATTGCTGCGGCTCGATACCTCGCCCACG
CGTACGTTGGCGCTCGATATCGTCGCCCACCACCTGGAACTGCTCGCGGCTCGCGATTTCACGCGCCTGCGCAAACAGCT
CAAGGCCAACGACGACGACCTGCGCGACGCGCATGTGCTGATCCGCTCGCTCGAGCCGTTCCCCGGCGCCGCCTACGGCA
AAGCCGAAGCGGACTACGTCGTGCCCGACATCATGGTGCGCAAAACGGCGCAGGGTTGGCAGGCCGAACTGAATCCGGAA
GTCGTGCCGAAGCTGCGCATCAACCATCTGTACGCCAATATTCTGCGCAATAACCGGGGCGATCCGGGCAGCGGTTCGTT
GCGCCAGCAACTGCAGGAAGCACGCTGGCTGATCAAAAATATCCAGCAGCGTTTCGAGACCATTCTGCGGGTCGCGCAAG
CTATTGTGGAACGTCAAAAGAGCTTTTTTGTCCACGGCGAAATTGCGATGCGCCCCTTGGTCTTGCGAGAAATTGCTGAT
ACGCTAGGCCTACACGAGTCAACTGTCTCGCGTGTGACAACCGGTAAATACATGCTGACCCCATTCGGGACGCTTGAATT
TAAGTACTTCTTCGGATCACACGTTTCGACCGACACGGGCGGCGCGGCGTCTTCAACGGCGATCCGTGCGCTCATCAAGC
AACTGATAGGAGCGGAAAACCCGAAATCTCCTCTTTCAGACAGCCGCATCGCCGAACTGCTGGCGGAGCAGGGCTTCGTG
GTCGCGCGCCGCACCGTGGCGAAGTATCGCGAAGCACTGAAGATTCCGGCAGTCAACCTGCGCAAGTCTCTGTAG

Domains

Predicted by InterproScan.

Sigma-54, DNA binding domain (Sigma54_DBD)

(347-502)

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

(4-48)

Sigma-54 factor, core binding domain (Sigma54_CBD)

(140-331)


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

66.732

100

0.677