Detailed information    

insolico Bioinformatically predicted

Overview

Name   rpoN/rpoN1   Type   Machinery gene
Locus tag   U0034_RS12175 Genome accession   NZ_CP139970
Coordinates   2700468..2701970 (-) Length   500 a.a.
NCBI ID   WP_085227860.1    Uniprot ID   A0A1X7ESB4
Organism   Trinickia caryophylli strain HAMBI_2159     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 2695468..2706970
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  U0034_RS12150 (U0034_12140) - 2696269..2696904 (-) 636 WP_085227855.1 LON peptidase substrate-binding domain-containing protein -
  U0034_RS12155 (U0034_12145) rapZ 2696959..2697927 (-) 969 WP_085227856.1 RNase adapter RapZ -
  U0034_RS12160 (U0034_12150) hprK 2698073..2699041 (-) 969 WP_085227857.1 HPr(Ser) kinase/phosphatase -
  U0034_RS12165 (U0034_12155) ptsN 2699193..2699648 (-) 456 WP_085227858.1 PTS IIA-like nitrogen regulatory protein PtsN -
  U0034_RS12170 (U0034_12160) hpf 2699939..2700295 (-) 357 WP_085227859.1 ribosome hibernation-promoting factor, HPF/YfiA family -
  U0034_RS12175 (U0034_12165) rpoN/rpoN1 2700468..2701970 (-) 1503 WP_085227860.1 RNA polymerase factor sigma-54 Machinery gene
  U0034_RS12180 (U0034_12170) lptB 2702112..2702828 (-) 717 WP_085228104.1 LPS export ABC transporter ATP-binding protein -
  U0034_RS12185 (U0034_12175) lptA 2702915..2703562 (-) 648 WP_085227861.1 lipopolysaccharide transport periplasmic protein LptA -
  U0034_RS12190 (U0034_12180) lptC 2703597..2704196 (-) 600 WP_085227862.1 LPS export ABC transporter periplasmic protein LptC -
  U0034_RS12195 (U0034_12185) - 2704193..2704741 (-) 549 WP_085227863.1 HAD family hydrolase -
  U0034_RS12200 (U0034_12190) kdsD 2704741..2705724 (-) 984 WP_085227864.1 arabinose 5-phosphate isomerase KdsD -

Sequence

Protein


Download         Length: 500 a.a.        Molecular weight: 54855.13 Da        Isoelectric Point: 5.0023

>NTDB_id=912100 U0034_RS12175 WP_085227860.1 2700468..2701970(-) (rpoN/rpoN1) [Trinickia caryophylli strain HAMBI_2159]
MKASLQLRLSQHLALTPQLQQSIRLLQLSTLELQQEVAMAVAQNPLLESEDEWIASPLRVAGDGSVIAQAPTSSAPEPMS
GAAPAEGSRAEGAEPAGVDEYNGLSSSDNSDSTQWNLDDYGRSAAPSDDDDLPPLQIHESTTTLRDHLMAQLRVTQASPR
DRALVTFLIESLDDDGYLTATLDEVLADLPDELEVDLDELNAALALLHSFDPAGVGARSASECLKLQLLRLDNSPTRKLA
LDIVANHLELLAARDFTRLKKQLKTTDDALREAHALIRSLEPFPGAAYGKAEADYVVPDIMVRKTAQGWLAELNPEVVPR
LRINHLYANILRNNRGDPGSGSLRQQLQEARWLIKNIQQRFETILRVAQAIVERQKNFFVHGEIAMRPLVLREIADTLGL
HESTVSRVTTGKYMLTPFGTLEFKYFFGSHVSTDTGGAASSTAIRALIKQLIGAEDSKTPLSDSRIAELLAEQGFVVARR
TVAKYREALRIPAVNLRKSL

Nucleotide


Download         Length: 1503 bp        

>NTDB_id=912100 U0034_RS12175 WP_085227860.1 2700468..2701970(-) (rpoN/rpoN1) [Trinickia caryophylli strain HAMBI_2159]
ATGAAAGCCAGCCTCCAACTCCGCCTATCGCAGCATCTTGCGCTGACACCGCAGCTTCAGCAGTCGATCCGGCTGCTGCA
GCTGTCCACGCTCGAACTTCAGCAGGAAGTCGCGATGGCTGTCGCGCAAAATCCGCTGCTCGAAAGCGAGGACGAATGGA
TCGCAAGCCCGCTGCGCGTGGCCGGCGACGGCTCCGTGATCGCCCAGGCGCCCACGTCGTCCGCCCCCGAGCCGATGAGC
GGGGCCGCGCCCGCGGAAGGCTCGCGCGCCGAAGGGGCGGAGCCGGCCGGCGTCGACGAATACAACGGTCTGTCGTCGTC
CGACAATTCGGATTCGACGCAATGGAACCTCGACGACTACGGCCGAAGCGCCGCGCCGTCCGATGACGACGACCTCCCGC
CCCTGCAGATCCACGAATCCACGACGACGCTGCGCGACCACCTGATGGCCCAGTTGCGCGTGACGCAGGCGAGCCCGCGC
GACCGCGCGCTCGTAACGTTTCTGATCGAATCGCTCGACGATGACGGCTACCTCACGGCCACGCTCGACGAAGTGCTGGC
CGACCTGCCCGACGAGCTCGAAGTCGATCTCGACGAACTCAATGCGGCGCTCGCGCTGCTGCACAGCTTCGATCCGGCCG
GTGTCGGCGCCCGCTCGGCATCCGAATGCCTGAAGCTGCAGTTGCTGCGGCTCGACAACTCCCCCACGCGCAAGCTCGCG
CTCGACATCGTCGCCAACCATCTCGAGCTTTTGGCCGCGCGCGATTTCACGCGGCTGAAAAAACAGCTGAAGACCACCGA
CGATGCGCTGCGCGAAGCGCATGCGCTGATCCGCTCGCTCGAGCCGTTTCCGGGCGCGGCCTACGGCAAGGCCGAAGCGG
ACTACGTCGTGCCTGACATCATGGTCAGGAAGACTGCCCAGGGCTGGCTGGCGGAGCTGAATCCGGAGGTGGTGCCGCGG
CTGCGGATCAACCATCTCTACGCGAACATCCTGCGCAACAACCGCGGTGACCCGGGCAGCGGCTCGCTGCGCCAGCAACT
GCAGGAAGCCCGTTGGCTCATCAAGAACATCCAGCAGCGTTTCGAGACGATCCTGCGCGTGGCGCAGGCGATCGTCGAGC
GGCAGAAGAACTTTTTCGTGCACGGCGAAATCGCCATGCGCCCCTTGGTTTTGCGGGAAATAGCTGATACGCTGGGCTTG
CACGAGTCGACGGTCTCTCGCGTGACCACCGGTAAGTACATGCTCACCCCATTCGGGACGCTCGAGTTCAAGTACTTTTT
CGGTTCGCACGTTTCCACCGACACGGGGGGAGCGGCCTCGTCGACCGCCATTCGCGCGCTCATCAAGCAACTGATAGGAG
CAGAAGACTCTAAAACACCGCTTTCGGACAGCCGCATAGCCGAACTGCTGGCGGAACAAGGGTTCGTGGTGGCGCGCCGC
ACGGTTGCCAAATACCGCGAAGCTCTCAGGATCCCGGCAGTGAATCTGCGCAAGTCTCTATAG

Domains

Predicted by InterproScan.

Sigma-54, DNA binding domain (Sigma54_DBD)

(343-498)

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

(4-48)

Sigma-54 factor, core binding domain (Sigma54_CBD)

(137-327)


Secondary structure

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



3D structure

Source ID Structure
  AlphaFold DB A0A1X7ESB4

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

69.323

100

0.696