Detailed information    

insolico Bioinformatically predicted

Overview

Name   rpoN/rpoN1   Type   Machinery gene
Locus tag   Herbaro_RS18585 Genome accession   NZ_CP118632
Coordinates   4119259..4120749 (+) Length   496 a.a.
NCBI ID   WP_275011090.1    Uniprot ID   -
Organism   Herbaspirillum sp. WKF16     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 4114259..4125749
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  Herbaro_RS18560 (Herbaro_18560) - 4115592..4116620 (+) 1029 WP_275011085.1 KpsF/GutQ family sugar-phosphate isomerase -
  Herbaro_RS18565 (Herbaro_18565) - 4116620..4117183 (+) 564 WP_275011086.1 HAD family hydrolase -
  Herbaro_RS18570 (Herbaro_18570) lptC 4117180..4117788 (+) 609 WP_275011087.1 LPS export ABC transporter periplasmic protein LptC -
  Herbaro_RS18575 (Herbaro_18575) lptA 4117835..4118434 (+) 600 WP_275011088.1 lipopolysaccharide transport periplasmic protein LptA -
  Herbaro_RS18580 (Herbaro_18580) lptB 4118436..4119176 (+) 741 WP_275011089.1 LPS export ABC transporter ATP-binding protein -
  Herbaro_RS18585 (Herbaro_18585) rpoN/rpoN1 4119259..4120749 (+) 1491 WP_275011090.1 RNA polymerase factor sigma-54 Machinery gene
  Herbaro_RS18590 (Herbaro_18590) raiA 4120891..4121253 (+) 363 WP_275011091.1 ribosome-associated translation inhibitor RaiA -
  Herbaro_RS18595 (Herbaro_18595) - 4121315..4121626 (-) 312 WP_275011092.1 hypothetical protein -
  Herbaro_RS18600 (Herbaro_18600) grxD 4121612..4121923 (+) 312 WP_079218187.1 Grx4 family monothiol glutaredoxin -
  Herbaro_RS18605 (Herbaro_18605) - 4121965..4122543 (+) 579 WP_275011093.1 UbiX family flavin prenyltransferase -
  Herbaro_RS18610 (Herbaro_18610) - 4122599..4123357 (-) 759 WP_275011094.1 SDR family oxidoreductase -

Sequence

Protein


Download         Length: 496 a.a.        Molecular weight: 55210.74 Da        Isoelectric Point: 5.1154

>NTDB_id=794121 Herbaro_RS18585 WP_275011090.1 4119259..4120749(+) (rpoN/rpoN1) [Herbaspirillum sp. WKF16]
MKQSLQLRTSQHLALTPQLQQSIRLLQLSTLELHQELEQILSDNPLLERLDDALDNSVRLLADGAISATPSSGVAETAGE
AAAEPAAPGGDGEANFEHQDNTPDNSVSGESDWSFDDVARNGKSSDDEDARPQLEAHEITLREHLLEQIRLTARTLRDRA
LLELLTDALDDSGYLEEPLEDILSRLPEELGVDLDELSISLKLLQSLDPAGVGARSPSECLALQIRRMPKVAFVTRRLAL
KIVEDYLPLFAQRDFNKIKKALDCDDEDLREAQAVIRQCRPHPGAEFARDASDYVVPDVIVRQTKNGWQVLLNHDVMPKL
RVNAMYASALKQSKGEVSLTSQLQEAKWLIKNMRQRFDTILRVAQAIVERQRNFFSHGAVAMRPLVLREIADTLGLHEST
ISRVTTQKYMLTPHGMFELKYFFGSHVATETGGEASSTAIRALIKQLIGAENPQTPLSDSKIADMLAEQGMVVARRTVAK
YREVLKIPPVNLRKSL

Nucleotide


Download         Length: 1491 bp        

>NTDB_id=794121 Herbaro_RS18585 WP_275011090.1 4119259..4120749(+) (rpoN/rpoN1) [Herbaspirillum sp. WKF16]
ATGAAACAGTCGCTCCAGTTACGCACCTCGCAGCACCTGGCATTGACGCCGCAATTGCAGCAGTCGATCAGGCTGCTGCA
ACTGTCGACGCTGGAACTGCACCAGGAACTGGAACAGATCCTCTCCGACAATCCGCTGCTCGAGCGCCTCGACGATGCGC
TCGACAACTCGGTGCGCCTCTTGGCCGACGGCGCGATCTCGGCGACGCCCTCCTCCGGCGTCGCCGAGACCGCCGGCGAG
GCCGCGGCCGAACCGGCTGCGCCCGGCGGCGACGGCGAGGCCAACTTCGAGCACCAGGACAACACGCCCGACAACAGCGT
CAGCGGCGAGTCCGACTGGAGCTTCGACGACGTCGCGCGCAACGGCAAGTCTTCCGACGACGAAGACGCCCGGCCGCAGC
TCGAAGCGCACGAGATCACCCTGCGCGAACACCTGCTGGAGCAGATCCGCCTCACCGCGCGCACGCTGCGCGACCGCGCG
CTGCTGGAACTGCTGACCGACGCGCTCGACGACAGCGGTTACCTGGAAGAGCCGCTGGAAGACATCCTCTCGCGCCTGCC
CGAAGAACTGGGCGTCGACCTCGATGAGCTCTCGATCTCGCTCAAGCTGCTGCAGAGCCTGGACCCGGCCGGCGTCGGCG
CGCGCAGCCCCAGCGAATGCCTGGCGCTGCAGATCCGGCGCATGCCCAAGGTGGCCTTCGTGACACGCCGGCTGGCGCTG
AAGATCGTCGAGGATTACCTGCCGCTGTTCGCCCAGCGCGACTTCAACAAGATCAAGAAGGCGCTCGACTGCGACGACGA
AGACCTGCGCGAGGCGCAGGCCGTGATCCGCCAATGCCGCCCGCACCCGGGCGCGGAATTCGCGCGCGACGCCTCCGACT
ACGTGGTGCCGGACGTGATTGTCAGGCAAACAAAGAACGGCTGGCAGGTGCTGCTGAACCATGACGTGATGCCCAAGCTG
CGCGTCAATGCGATGTACGCCAGCGCGCTGAAGCAGTCCAAAGGCGAAGTTTCCCTCACGTCACAGCTGCAGGAAGCCAA
GTGGCTGATCAAAAACATGCGGCAGCGCTTCGATACGATTTTGCGAGTCGCACAGGCAATTGTCGAACGTCAAAGAAACT
TCTTTTCGCATGGCGCTGTCGCCATGCGGCCCCTTGTGCTGCGTGAAATTGCTGATACACTGGGTCTACACGAGAGCACA
ATCTCTCGCGTGACAACTCAGAAATACATGCTGACGCCACATGGCATGTTCGAGTTGAAATACTTCTTCGGCAGCCACGT
CGCGACGGAAACCGGAGGCGAAGCATCCTCCACTGCGATCCGGGCGCTGATCAAACAGTTGATAGGAGCAGAAAACCCCC
AGACCCCATTATCCGATAGCAAGATTGCGGATATGCTGGCAGAACAAGGCATGGTGGTCGCGCGACGTACCGTCGCAAAA
TACCGCGAAGTGCTGAAAATTCCGCCGGTAAATCTCCGCAAATCCCTCTGA

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

60.239

100

0.611