Detailed information    

insolico Bioinformatically predicted

Overview

Name   rpoN/rpoN1   Type   Machinery gene
Locus tag   hsc_RS19535 Genome accession   NZ_CP013136
Coordinates   4496432..4497922 (+) Length   496 a.a.
NCBI ID   WP_013235904.1    Uniprot ID   D8ISM8
Organism   Herbaspirillum seropedicae strain AU14040     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 4491432..4502922
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  hsc_RS19510 (Hsc_4091) - 4492752..4493780 (+) 1029 WP_069374890.1 KpsF/GutQ family sugar-phosphate isomerase -
  hsc_RS19515 (Hsc_4092) - 4493780..4494334 (+) 555 WP_069374891.1 KdsC family phosphatase -
  hsc_RS19520 (Hsc_4093) lptC 4494331..4494939 (+) 609 WP_069374892.1 LPS export ABC transporter periplasmic protein LptC -
  hsc_RS19525 (Hsc_4094) lptA 4495009..4495614 (+) 606 WP_013235902.1 lipopolysaccharide transport periplasmic protein LptA -
  hsc_RS19530 (Hsc_4095) lptB 4495616..4496359 (+) 744 WP_013235903.1 LPS export ABC transporter ATP-binding protein -
  hsc_RS19535 (Hsc_4096) rpoN/rpoN1 4496432..4497922 (+) 1491 WP_013235904.1 RNA polymerase factor sigma-54 Machinery gene
  hsc_RS19540 (Hsc_4097) hpf 4498076..4498438 (+) 363 WP_048348626.1 ribosome hibernation-promoting factor, HPF/YfiA family -
  hsc_RS19545 (Hsc_4098) grxD 4498770..4499081 (+) 312 WP_013235906.1 Grx4 family monothiol glutaredoxin -
  hsc_RS19550 (Hsc_4099) - 4499105..4499707 (+) 603 WP_013235907.1 UbiX family flavin prenyltransferase -
  hsc_RS19555 (Hsc_4100) - 4499798..4500565 (-) 768 WP_069374893.1 SDR family oxidoreductase -

Sequence

Protein


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

>NTDB_id=160214 hsc_RS19535 WP_013235904.1 4496432..4497922(+) (rpoN/rpoN1) [Herbaspirillum seropedicae strain AU14040]
MKQSLQLRTSQHLALTPQLQQSIRLLQLSTLELHQELEQILTDNPLLERLDDALDNSVRLLADGAVSAAPSSGVSETTGS
EASSEAAPAAADGESSFEYQDTAPEGVSGDSDWSFDDVARSGKSPDDEDARPQLEAHEITLREHLLEQIRVTARTQRDRA
LLELLTDALDDSGYLEEPLEDILARLPEELGVDLEELSISLKLLQSLDPAGVGARSAGECLALQIRRLPKVPFVTRRLAL
KIVEDYLPLFAQRDFNKIKKALDCDDEDLREAQAVIRQCRPHPGAEFARDASDYVVPDVIVKQTKNGWQVMLNHEVMPKL
RVNAMYASALKQAKGEGSLSSQLQEAKWLIKNMRQRFDTILRVAQAIVERQRNFFSHGAVAMRPLVLREIADTLGLHEST
ISRVTTQKYMLTPHGMFELKYFFGSHVATETGGEASSTAIRALIKQLIGAENPQTPLSDSKIADMLAEQGMVVARRTVAK
YREVLKIPPVNLRKSL

Nucleotide


Download         Length: 1491 bp        

>NTDB_id=160214 hsc_RS19535 WP_013235904.1 4496432..4497922(+) (rpoN/rpoN1) [Herbaspirillum seropedicae strain AU14040]
ATGAAACAGTCGCTCCAGTTACGTACCTCGCAGCATCTCGCATTGACGCCGCAATTGCAGCAGTCGATCAGACTGCTGCA
ACTGTCGACGCTGGAATTGCACCAGGAGCTGGAGCAGATACTGACCGACAATCCCCTGCTGGAACGCCTCGACGACGCGC
TCGACAATTCGGTGCGCCTGCTGGCCGATGGCGCCGTCTCGGCGGCCCCCTCGAGCGGCGTGAGCGAGACCACCGGCAGT
GAGGCCAGCAGCGAAGCCGCCCCCGCAGCGGCCGATGGCGAATCCAGTTTCGAGTACCAGGACACCGCCCCCGAGGGCGT
GAGCGGCGACTCCGACTGGAGCTTCGACGATGTGGCCCGCAGCGGCAAGTCGCCCGATGACGAAGACGCCCGCCCCCAGC
TGGAAGCGCACGAAATCACCCTACGCGAACATCTGCTGGAGCAGATCCGCGTGACGGCGCGCACGCAGCGCGACCGCGCC
CTGCTGGAACTGCTCACCGATGCGCTGGACGACAGCGGCTATCTGGAAGAGCCGCTGGAAGACATCCTCGCGCGCCTGCC
CGAAGAGTTGGGCGTGGACCTGGAAGAGCTCTCCATTTCGCTGAAGCTGCTGCAAAGCCTGGACCCGGCGGGCGTGGGTG
CGCGCAGCGCTGGCGAATGCCTGGCCCTGCAGATCCGCCGCCTGCCCAAGGTGCCCTTCGTCACGCGCCGGCTGGCGCTG
AAGATCGTGGAAGATTACCTGCCGCTGTTTGCGCAGCGCGACTTCAACAAGATCAAGAAGGCGCTCGATTGCGATGACGA
AGACCTGCGTGAAGCGCAGGCCGTGATCCGCCAGTGCCGTCCGCACCCCGGCGCGGAATTCGCGCGCGACGCCTCCGACT
ATGTCGTGCCGGACGTGATTGTCAAACAGACAAAGAACGGCTGGCAGGTCATGCTCAACCATGAGGTCATGCCCAAGCTG
CGCGTCAACGCCATGTACGCCAGCGCGCTCAAGCAGGCCAAGGGCGAGGGCTCGCTGTCCTCGCAGTTGCAGGAAGCCAA
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

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