Detailed information    

insolico Bioinformatically predicted

Overview

Name   rpoN/rpoN1   Type   Machinery gene
Locus tag   HSERO_RS19855 Genome accession   NC_014323
Coordinates   4557924..4559414 (+) Length   496 a.a.
NCBI ID   WP_013235904.1    Uniprot ID   D8ISM8
Organism   Herbaspirillum seropedicae SmR1     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 4552924..4564414
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  HSERO_RS19830 (Hsero_3968) - 4554244..4555272 (+) 1029 WP_013235899.1 KpsF/GutQ family sugar-phosphate isomerase -
  HSERO_RS19835 (Hsero_3969) - 4555272..4555826 (+) 555 WP_013235900.1 KdsC family phosphatase -
  HSERO_RS19840 (Hsero_3970) lptC 4555823..4556431 (+) 609 WP_013235901.1 LPS export ABC transporter periplasmic protein LptC -
  HSERO_RS19845 (Hsero_3971) lptA 4556501..4557106 (+) 606 WP_013235902.1 lipopolysaccharide transport periplasmic protein LptA -
  HSERO_RS19850 (Hsero_3972) lptB 4557108..4557851 (+) 744 WP_013235903.1 LPS export ABC transporter ATP-binding protein -
  HSERO_RS19855 (Hsero_3973) rpoN/rpoN1 4557924..4559414 (+) 1491 WP_013235904.1 RNA polymerase factor sigma-54 Machinery gene
  HSERO_RS19860 (Hsero_3974) hpf 4559568..4559931 (+) 364 Protein_3978 ribosome hibernation-promoting factor, HPF/YfiA family -
  HSERO_RS19865 (Hsero_3975) grxD 4560263..4560574 (+) 312 WP_013235906.1 Grx4 family monothiol glutaredoxin -
  HSERO_RS19870 (Hsero_3976) - 4560598..4561200 (+) 603 WP_013235907.1 UbiX family flavin prenyltransferase -
  HSERO_RS19875 (Hsero_3977) - 4561291..4562058 (-) 768 WP_013235908.1 SDR family oxidoreductase -

Sequence

Protein


Download         Length: 496 a.a.        Molecular weight: 55041.55 Da        Isoelectric Point: 5.0478

>NTDB_id=37823 HSERO_RS19855 WP_013235904.1 4557924..4559414(+) (rpoN/rpoN1) [Herbaspirillum seropedicae SmR1]
MKQSLQLRTSQHLALTPQLQQSIRLLQLSTLELHQELEQILTDNPLLERLDDALDNSVRLLADGAVSAAPSSGVSETTGS
EASSEAAPAAADGESSFEYQDTAPEGVSGDSDWSFDDVARSGKSPDDEDARPQLEAHEITLREHLLEQIRVTARTQRDRA
LLELLTDALDDSGYLEEPLEDILARLPEELGVDLEELSISLKLLQSLDPAGVGARSAGECLALQIRRLPKVPFVTRRLAL
KIVEDYLPLFAQRDFNKIKKALDCDDEDLREAQAVIRQCRPHPGAEFARDASDYVVPDVIVKQTKNGWQVMLNHEVMPKL
RVNAMYASALKQAKGEGSLSSQLQEAKWLIKNMRQRFDTILRVAQAIVERQRNFFSHGAVAMRPLVLREIADTLGLHEST
ISRVTTQKYMLTPHGMFELKYFFGSHVATETGGEASSTAIRALIKQLIGAENPQTPLSDSKIADMLAEQGMVVARRTVAK
YREVLKIPPVNLRKSL

Nucleotide


Download         Length: 1491 bp        

>NTDB_id=37823 HSERO_RS19855 WP_013235904.1 4557924..4559414(+) (rpoN/rpoN1) [Herbaspirillum seropedicae SmR1]
ATGAAACAGTCGCTCCAGTTACGTACCTCGCAGCATCTCGCATTGACGCCGCAATTGCAGCAGTCGATCAGACTGCTGCA
ACTGTCGACGCTGGAATTGCACCAGGAGCTGGAGCAGATACTGACCGACAATCCCCTGCTGGAACGCCTCGACGACGCGC
TCGACAATTCGGTGCGCCTGCTGGCCGATGGCGCCGTCTCGGCGGCCCCCTCGAGCGGCGTGAGCGAGACCACCGGCAGT
GAGGCCAGCAGCGAAGCCGCTCCCGCAGCGGCCGATGGCGAATCCAGTTTCGAGTACCAGGACACCGCCCCCGAGGGCGT
GAGCGGCGACTCCGACTGGAGCTTCGACGATGTGGCCCGCAGCGGCAAGTCGCCCGATGACGAAGACGCCCGCCCCCAGC
TGGAAGCGCACGAAATCACCCTGCGCGAACATCTGCTGGAACAGATCCGCGTGACGGCGCGCACGCAGCGCGACCGCGCC
CTGCTGGAACTGCTCACCGATGCGCTGGACGACAGCGGCTATCTGGAAGAGCCGCTGGAAGACATCCTCGCGCGCCTGCC
CGAAGAGTTGGGCGTGGACCTGGAAGAACTCTCCATTTCGCTGAAGCTGCTGCAAAGCCTGGACCCGGCGGGCGTGGGTG
CGCGCAGCGCTGGCGAATGCCTGGCCCTGCAGATCCGCCGCCTGCCCAAGGTGCCCTTCGTCACGCGCCGGCTGGCGCTG
AAGATCGTGGAAGATTACCTGCCGCTGTTTGCGCAGCGCGACTTCAACAAGATCAAGAAGGCGCTCGATTGCGATGACGA
AGACCTGCGTGAAGCGCAGGCCGTGATCCGCCAGTGCCGTCCGCACCCCGGCGCGGAATTCGCGCGCGATGCCTCCGACT
ATGTCGTGCCGGACGTGATTGTCAAACAGACAAAGAACGGCTGGCAGGTCATGCTCAACCATGAGGTCATGCCCAAGCTG
CGCGTCAACGCCATGTACGCCAGCGCGCTCAAGCAGGCCAAGGGCGAAGGATCGCTATCCTCGCAGTTGCAGGAAGCCAA
GTGGCTCATCAAGAACATGCGGCAACGTTTCGATACAATTTTGCGCGTCGCGCAGGCCATTGTGGAACGTCAAAGAAACT
TCTTTTCACATGGGGCAGTCGCCATGCGCCCCCTTGTGCTACGTGAAATTGCTGATACACTGGGTCTACACGAGAGCACT
ATCTCTCGCGTGACAACTCAGAAATACATGCTCACACCGCATGGCATGTTTGAGTTGAAGTACTTCTTCGGTAGCCACGT
CGCAACTGAAACCGGAGGCGAAGCTTCCTCCACCGCGATACGGGCGCTGATCAAACAGTTGATAGGAGCCGAAAACCCGC
AGACCCCATTATCCGATAGCAAGATTGCGGATATGCTGGCAGAACAAGGCATGGTGGTCGCGCGACGCACAGTCGCCAAA
TACCGCGAAGTGTTGAAGATTCCGCCAGTCAATCTCCGCAAGTCCCTCTGA

Domains

Predicted by InterproScan.

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

(4-48)

Sigma-54 factor, core binding domain (Sigma54_CBD)

(134-326)

Sigma-54, DNA binding domain (Sigma54_DBD)

(339-494)


Secondary structure

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



3D structure

Source ID Structure
  AlphaFold DB D8ISM8

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

59.921

100

0.615

Multiple sequence alignment