Detailed information    

insolico Bioinformatically predicted

Overview

Name   rpoN/rpoN1   Type   Machinery gene
Locus tag   PATSB16_RS16245 Genome accession   NZ_CP014839
Coordinates   3555937..3557424 (+) Length   495 a.a.
NCBI ID   WP_047215104.1    Uniprot ID   A0A0G3EV24
Organism   Pandoraea thiooxydans strain ATSB16     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 3550937..3562424
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  PATSB16_RS16220 (PATSB16_34640) - 3552251..3553234 (+) 984 WP_047216671.1 KpsF/GutQ family sugar-phosphate isomerase -
  PATSB16_RS16225 (PATSB16_34650) - 3553231..3553773 (+) 543 WP_047215100.1 KdsC family phosphatase -
  PATSB16_RS16230 (PATSB16_34660) lptC 3553783..3554406 (+) 624 WP_047215101.1 LPS export ABC transporter periplasmic protein LptC -
  PATSB16_RS16235 (PATSB16_34670) lptA 3554426..3555067 (+) 642 WP_047215102.1 lipopolysaccharide transport periplasmic protein LptA -
  PATSB16_RS16240 (PATSB16_34680) lptB 3555060..3555827 (+) 768 WP_047215103.1 LPS export ABC transporter ATP-binding protein -
  PATSB16_RS16245 (PATSB16_34690) rpoN/rpoN1 3555937..3557424 (+) 1488 WP_047215104.1 RNA polymerase factor sigma-54 Machinery gene
  PATSB16_RS16250 (PATSB16_34700) hpf 3557547..3557891 (+) 345 WP_047215105.1 ribosome hibernation-promoting factor, HPF/YfiA family -
  PATSB16_RS16255 (PATSB16_34710) - 3558110..3558565 (+) 456 WP_047215106.1 PTS sugar transporter subunit IIA -
  PATSB16_RS16260 (PATSB16_34720) hprK 3558609..3559577 (+) 969 WP_047215107.1 HPr(Ser) kinase/phosphatase -
  PATSB16_RS16265 (PATSB16_34730) - 3559666..3559944 (+) 279 WP_047215108.1 PsiF family protein -
  PATSB16_RS16270 (PATSB16_34740) rapZ 3560079..3560951 (+) 873 WP_047215109.1 RNase adapter RapZ -
  PATSB16_RS16275 (PATSB16_34750) mutY 3560960..3562075 (-) 1116 WP_047215110.1 A/G-specific adenine glycosylase -

Sequence

Protein


Download         Length: 495 a.a.        Molecular weight: 54647.61 Da        Isoelectric Point: 5.3785

>NTDB_id=174597 PATSB16_RS16245 WP_047215104.1 3555937..3557424(+) (rpoN/rpoN1) [Pandoraea thiooxydans strain ATSB16]
MKPTLQLRTSQHLALTPQLQQSIRLLQLSTLELQQEVEHALTQNPMLEQADDWLSGSVRVNTDGSLRSERGASAAEPPLG
GSREAASPEGGGDQDGSDYGEPLRDTAGDWTLNDFSRNGNAQDDDDASQPQLHVDQTSLREHLLAQLNLTQASQRDRALV
GFLIESLDEDGYLGITLDEIQHELLSELELETEELNAALALLQSFDPAGVGARNAAECLKLQLQRQPANAVRALALRIVQ
DHLELLAARDFTRLKRLLGASDAELRAAHAAIRALDPFPGSAYGGPTTDYVIPDVLVRKSGKTWHAELNPEIMPKLRINE
MYARILRSNRNDPGAGNLQQQLQEARWLIKNIQQRFDTILRVAQAIVERQKNFFTHGEIGMRPLVLREIADTLGLHESTI
SRVTTSKYMLTPFGTFELKYFFGSHVATDTGGAASSTAIRALIKQLIGAEESKNPLSDSRIAELLGEQGFVVARRTVAKY
REALRIPAVNLRKSL

Nucleotide


Download         Length: 1488 bp        

>NTDB_id=174597 PATSB16_RS16245 WP_047215104.1 3555937..3557424(+) (rpoN/rpoN1) [Pandoraea thiooxydans strain ATSB16]
ATGAAACCGACGCTTCAACTACGCACCTCCCAGCATCTGGCCCTGACCCCTCAGTTGCAGCAATCGATCCGTTTGCTGCA
ACTGTCGACGCTCGAGCTGCAGCAGGAAGTGGAACACGCGCTGACACAAAACCCGATGCTGGAGCAGGCCGACGACTGGC
TCTCGGGCTCGGTTCGCGTCAACACCGACGGTTCCTTGCGCAGCGAGCGCGGCGCATCCGCCGCCGAGCCACCGCTTGGC
GGCAGCCGCGAAGCGGCATCGCCCGAGGGCGGCGGCGACCAGGACGGCAGCGATTATGGCGAACCCCTGCGGGACACCGC
CGGCGACTGGACGCTCAACGATTTCAGTCGCAATGGCAACGCCCAGGACGACGACGACGCGTCACAGCCGCAACTGCATG
TCGACCAGACCAGCCTGCGCGAACATCTGCTCGCGCAACTGAATCTGACCCAGGCCAGCCAACGGGACCGTGCCCTGGTG
GGCTTCCTGATCGAATCCCTCGATGAAGACGGCTATCTGGGAATTACGCTGGATGAAATCCAGCATGAGCTGTTGTCGGA
GCTCGAGCTCGAAACCGAGGAACTGAATGCCGCACTGGCCCTGCTGCAAAGCTTCGATCCGGCGGGCGTGGGCGCGCGCA
ACGCCGCGGAATGCCTGAAACTGCAGTTGCAGCGCCAGCCGGCCAATGCAGTCCGGGCGCTGGCGCTGCGGATCGTGCAG
GACCATCTCGAGTTATTGGCGGCCCGCGACTTCACTCGACTCAAACGCCTGCTCGGCGCGAGCGACGCCGAATTGCGCGC
GGCTCATGCAGCGATCCGCGCGCTCGATCCATTCCCCGGCTCGGCTTATGGCGGCCCCACCACGGACTACGTCATTCCGG
ACGTCCTGGTGCGCAAGTCAGGCAAGACCTGGCACGCGGAGTTGAATCCGGAGATCATGCCGAAGCTGCGCATCAACGAA
ATGTATGCGCGGATTCTGCGCAGCAATCGCAACGACCCGGGCGCCGGCAATCTCCAGCAGCAACTGCAGGAGGCGCGCTG
GCTGATCAAGAATATTCAGCAACGCTTCGATACCATCCTGCGCGTCGCGCAAGCCATCGTCGAGCGGCAAAAGAATTTTT
TCACGCACGGTGAAATCGGCATGCGGCCCTTGGTTTTGCGGGAAATTGCTGATACGCTAGGCTTACATGAATCGACCATT
TCACGCGTAACGACCAGCAAGTACATGCTCACGCCGTTCGGCACGTTCGAGCTGAAATATTTTTTCGGCAGCCATGTGGC
AACCGACACCGGCGGGGCGGCCTCCTCGACCGCCATTCGCGCCCTCATCAAGCAACTGATAGGAGCAGAAGAGTCCAAAA
ACCCCCTTTCCGACAGCCGCATAGCTGAACTGCTGGGTGAGCAGGGTTTCGTGGTGGCACGGCGCACCGTTGCCAAATAC
CGCGAAGCGTTACGGATCCCGGCAGTCAATTTGCGCAAATCTTTGTAA

Domains

Predicted by InterproScan.

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

(5-48)

Sigma-54 factor, core binding domain (Sigma54_CBD)

(133-322)

Sigma-54, DNA binding domain (Sigma54_DBD)

(338-493)


Secondary structure

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



3D structure

Source ID Structure
  AlphaFold DB A0A0G3EV24

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

66.267

100

0.671

Multiple sequence alignment