Detailed information    

insolico Bioinformatically predicted

Overview

Name   rpoN/rpoN1   Type   Machinery gene
Locus tag   RC54_RS20835 Genome accession   NZ_CP024996
Coordinates   4691111..4692601 (+) Length   496 a.a.
NCBI ID   WP_058896751.1    Uniprot ID   A0AAD0UC74
Organism   Herbaspirillum rubrisubalbicans strain DSM 11543     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 4686111..4697601
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  RC54_RS20810 (RC54_20805) - 4687424..4688452 (+) 1029 WP_061790000.1 KpsF/GutQ family sugar-phosphate isomerase -
  RC54_RS20815 (RC54_20810) - 4688452..4689006 (+) 555 WP_058896747.1 HAD hydrolase family protein -
  RC54_RS20820 (RC54_20815) lptC 4689003..4689623 (+) 621 WP_061789999.1 LPS export ABC transporter periplasmic protein LptC -
  RC54_RS20825 (RC54_20820) lptA 4689674..4690303 (+) 630 WP_061789998.1 lipopolysaccharide transport periplasmic protein LptA -
  RC54_RS20830 (RC54_20825) lptB 4690306..4691049 (+) 744 WP_174526117.1 LPS export ABC transporter ATP-binding protein -
  RC54_RS20835 (RC54_20830) rpoN/rpoN1 4691111..4692601 (+) 1491 WP_058896751.1 RNA polymerase factor sigma-54 Machinery gene
  RC54_RS20840 (RC54_20835) raiA 4692756..4693118 (+) 363 WP_017452550.1 ribosome-associated translation inhibitor RaiA -
  RC54_RS20845 (RC54_20840) grxD 4693364..4693675 (+) 312 WP_017452551.1 Grx4 family monothiol glutaredoxin -
  RC54_RS20850 (RC54_20845) - 4693702..4694304 (+) 603 WP_058896752.1 UbiX family flavin prenyltransferase -
  RC54_RS20855 (RC54_20850) - 4694383..4695141 (-) 759 WP_058896753.1 SDR family oxidoreductase -

Sequence

Protein


Download         Length: 496 a.a.        Molecular weight: 55140.65 Da        Isoelectric Point: 5.0478

>NTDB_id=256994 RC54_RS20835 WP_058896751.1 4691111..4692601(+) (rpoN/rpoN1) [Herbaspirillum rubrisubalbicans strain DSM 11543]
MKQSLQLRTSQHLALTPQLQQSIRLLQLSTLELHQELEQILSDNPLLERLDDALDNSVRLLADGAVSASPSSGVADTGGD
NSGDTAPAAADGESSFEYQDNSPDTGVTGESDWSFDDVARSGKSPEDEDARPQLEAHELTLREHLLEQIRVTARTQRDRA
LLELLTDALDESGYLEEPLEEILARLPEELGIDLEELSISLKLLQSLDPAGVGARNAGECLALQIRRLPKIAFVTRKLAL
RIVEDYLPLFAQRDFNKIKKALDCDDEDLREAQAVIRQCRPHPGAEFARDVSDYVVPDVIVKQTKNGWQVMLNHEVMPKL
RVNAMYASALKQAKGEGSLSSQLQEAKWLIKNMRQRFDTILRVAQAIVERQRNFFSHGAVAMRPLVLREIADTLGLHEST
ISRVTTQKYMLTPHGMFELKYFFGSHVATETGGEASSTAIRALIKQLIGAENPQTPLSDSKIADMLAEQGMVVARRTVAK
YREVLKIPPVNLRKSL

Nucleotide


Download         Length: 1491 bp        

>NTDB_id=256994 RC54_RS20835 WP_058896751.1 4691111..4692601(+) (rpoN/rpoN1) [Herbaspirillum rubrisubalbicans strain DSM 11543]
ATGAAACAGTCGCTCCAGTTACGTACCTCGCAGCACCTCGCATTGACGCCGCAACTGCAGCAGTCGATCAGACTGCTGCA
ACTGTCGACGCTGGAACTGCACCAGGAACTGGAACAGATCCTCTCCGACAATCCCCTGCTGGAACGCCTCGATGACGCGC
TGGACAATTCGGTGCGCCTCTTGGCCGACGGCGCCGTCTCGGCCTCGCCGTCCAGCGGCGTGGCCGACACCGGTGGCGAC
AACAGTGGCGACACGGCCCCCGCCGCGGCCGATGGCGAATCCAGCTTCGAGTACCAGGACAACAGTCCCGATACCGGCGT
GACCGGTGAATCCGACTGGAGCTTCGACGACGTGGCACGCAGCGGCAAGTCGCCCGAGGACGAGGATGCCCGGCCGCAAC
TGGAAGCGCATGAACTGACCCTGCGCGAACACCTGCTGGAACAGATTCGCGTGACCGCGCGCACCCAGCGCGACCGTGCC
CTGCTGGAGCTGCTTACTGATGCGCTTGACGAAAGCGGCTATCTGGAAGAGCCGCTGGAAGAGATCCTGGCGCGCCTGCC
GGAAGAACTGGGCATCGACCTGGAAGAACTGTCGATCTCGCTGAAGCTGCTGCAGAGCCTTGACCCGGCCGGTGTCGGTG
CGCGTAACGCCGGCGAATGCCTGGCGCTGCAAATCCGGCGCCTGCCCAAGATTGCCTTCGTCACGCGCAAGCTGGCGCTG
CGCATCGTGGAAGACTACCTGCCGCTGTTTGCCCAACGCGACTTCAACAAGATCAAGAAGGCCCTCGATTGCGACGACGA
AGACCTGCGCGAAGCGCAGGCCGTCATCCGTCAATGTCGTCCGCATCCGGGCGCGGAATTTGCGCGTGATGTCTCGGACT
ACGTGGTGCCGGACGTGATTGTCAAACAAACAAAGAACGGTTGGCAGGTCATGCTCAACCATGAGGTCATGCCCAAGCTG
CGCGTCAACGCCATGTATGCCAGCGCGCTCAAGCAGGCCAAGGGCGAGGGCTCGCTTTCTTCGCAGTTGCAGGAAGCCAA
GTGGCTCATCAAGAACATGCGGCAACGTTTCGATACCATTTTGCGGGTCGCGCAGGCTATTGTGGAGCGTCAAAGAAACT
TCTTTTCACATGGGGCAGTGGCGATGCGACCCCTTGTGCTGCGTGAAATTGCTGATACACTGGGTCTACACGAGAGCACC
ATCTCTCGCGTGACAACTCAGAAATACATGCTTACGCCGCACGGCATGTTCGAGTTGAAGTACTTCTTCGGTAGCCACGT
CGCAACTGAAACCGGAGGTGAAGCTTCCTCCACCGCGATACGGGCGCTGATCAAACAGTTGATAGGAGCCGAGAACCCGC
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)

(135-326)

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