Detailed information    

insolico Bioinformatically predicted

Overview

Name   rpoN/rpoN1   Type   Machinery gene
Locus tag   C798_RS23025 Genome accession   NZ_CP008956
Coordinates   5122136..5123626 (+) Length   496 a.a.
NCBI ID   WP_017452549.1    Uniprot ID   A0A6M3ZW81
Organism   Herbaspirillum rubrisubalbicans Os34     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 5117136..5128626
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  C798_RS23000 (C798_22825) - 5118453..5119481 (+) 1029 WP_017452544.1 KpsF/GutQ family sugar-phosphate isomerase -
  C798_RS23005 (C798_22830) - 5119481..5120035 (+) 555 WP_017452545.1 KdsC family phosphatase -
  C798_RS23010 (C798_22835) lptC 5120032..5120652 (+) 621 WP_017452546.1 LPS export ABC transporter periplasmic protein LptC -
  C798_RS23015 (C798_22840) lptA 5120703..5121326 (+) 624 WP_017452547.1 lipopolysaccharide transport periplasmic protein LptA -
  C798_RS23020 (C798_22845) lptB 5121329..5122072 (+) 744 WP_026052097.1 LPS export ABC transporter ATP-binding protein -
  C798_RS23025 (C798_22850) rpoN/rpoN1 5122136..5123626 (+) 1491 WP_017452549.1 RNA polymerase factor sigma-54 Machinery gene
  C798_RS23030 (C798_22855) hpf 5123781..5124143 (+) 363 WP_017452550.1 ribosome hibernation-promoting factor, HPF/YfiA family -
  C798_RS23035 (C798_22860) grxD 5124389..5124700 (+) 312 WP_017452551.1 Grx4 family monothiol glutaredoxin -
  C798_RS23040 (C798_22865) - 5124727..5125329 (+) 603 WP_017452552.1 UbiX family flavin prenyltransferase -
  C798_RS23045 (C798_22870) - 5125407..5126165 (-) 759 WP_017452553.1 SDR family oxidoreductase -
  C798_RS23050 (C798_22875) - 5126311..5127825 (-) 1515 WP_017452554.1 coniferyl aldehyde dehydrogenase -
  C798_RS23055 (C798_22880) - 5127822..5128601 (-) 780 WP_017452555.1 acetoacetate decarboxylase family protein -

Sequence

Protein


Download         Length: 496 a.a.        Molecular weight: 55196.75 Da        Isoelectric Point: 5.0503

>NTDB_id=125914 C798_RS23025 WP_017452549.1 5122136..5123626(+) (rpoN/rpoN1) [Herbaspirillum rubrisubalbicans Os34]
MKQSLQLRTSQHLALTPQLQQSIRLLQLSTLELHQELEQILSDNPLLERLDDALDNSVRLLADGAVSASPSSGVAETGGD
NTGDTAPAAVDGESSFEYQDNSPDTGVTGESDWSFDDVARSGKSPEDEDARPQLEAHELTLREHLLEQIRVTARTQRDRA
LLELLTDALDESGYLEEPLEEILARLPEELGIDLEELSISLKLLQSLDPAGVGARNAGECLALQIRRLPKIAFVTRKLAL
RIVEDYLPLFAQRDFNKIKKALDCDDEDLREAQAVIRQCRPHPGAEFARDVSDYVVPDVIVKQTKNGWQVMLNHEVMPKL
RVNAMYASALKQAKGEGSLSSQLQEAKWLIKNMRQRFDTILRVAQAIVERQRNFFSHGAVAMRPLVLREIADTLGLHEST
ISRVTTQKYMLTPHGMFELKYFFGSHVATETGGEASSTAIRALIKQLIGAENPQTPLSDSKIADMLAEQGMVVARRTVAK
YREVLKIPPVNLRKSL

Nucleotide


Download         Length: 1491 bp        

>NTDB_id=125914 C798_RS23025 WP_017452549.1 5122136..5123626(+) (rpoN/rpoN1) [Herbaspirillum rubrisubalbicans Os34]
ATGAAACAGTCGCTCCAGTTACGAACCTCGCAGCACCTCGCATTGACGCCGCAACTGCAGCAGTCGATCAGACTGCTGCA
ACTGTCGACGCTGGAACTGCACCAGGAACTGGAACAGATCCTCTCCGACAATCCCCTGCTGGAACGCCTTGATGATGCGC
TGGACAATTCGGTGCGCCTCTTGGCCGATGGCGCCGTCTCGGCCTCGCCTTCCAGCGGCGTGGCCGAGACCGGTGGCGAC
AACACTGGCGACACCGCCCCCGCCGCGGTCGATGGCGAATCCAGCTTCGAGTATCAGGACAACAGTCCCGATACCGGTGT
GACCGGTGAATCCGACTGGAGCTTCGACGACGTGGCACGCAGCGGCAAGTCGCCCGAGGACGAGGATGCCCGACCGCAAC
TGGAAGCGCATGAACTGACCCTGCGCGAACATCTGCTCGAACAGATCCGCGTGACCGCGCGCACCCAGCGCGACCGCGCC
CTGCTGGAGCTGCTCACTGATGCGCTTGACGAAAGCGGCTATCTGGAAGAGCCGCTGGAAGAGATCCTGGCGCGCCTGCC
GGAAGAACTGGGCATCGATCTGGAAGAACTGTCGATCTCGCTGAAGCTGCTGCAGAGCCTGGACCCGGCCGGTGTCGGTG
CGCGCAATGCCGGCGAATGCCTGGCGCTGCAGATCCGGCGCCTGCCCAAGATTGCCTTCGTCACGCGCAAGCTGGCGCTG
CGCATCGTGGAAGACTACCTGCCGCTGTTTGCCCAACGCGACTTCAACAAGATCAAGAAAGCCCTCGATTGCGACGACGA
AGACCTGCGCGAAGCGCAGGCCGTCATCCGTCAATGTCGTCCGCATCCGGGGGCGGAATTTGCGCGTGATGTCTCGGACT
ACGTGGTGCCGGACGTGATTGTCAAACAAACAAAGAACGGTTGGCAGGTCATGCTCAACCATGAGGTCATGCCCAAGCTG
CGCGTCAACGCCATGTATGCCAGCGCGCTCAAGCAGGCCAAGGGCGAGGGCTCGCTTTCTTCGCAGTTGCAGGAAGCCAA
GTGGCTCATCAAGAACATGCGGCAACGTTTCGATACCATTTTGCGGGTCGCGCAGGCTATTGTGGAGCGTCAAAGAAACT
TCTTTTCACATGGGGCAGTGGCAATGCGACCCCTTGTGCTGCGTGAAATTGCTGATACACTGGGTCTACACGAGAGCACC
ATCTCTCGCGTGACAACTCAGAAATACATGCTTACGCCGCACGGCATGTTCGAGTTGAAGTACTTCTTCGGTAGCCACGT
CGCAACTGAAACCGGAGGTGAAGCTTCCTCCACCGCGATACGGGCGCTGATCAAACAGTTGATAGGAGCCGAGAACCCGC
AGACCCCATTATCCGATAGCAAGATTGCGGATATGCTGGCAGAACAAGGCATGGTGGTCGCGCGACGCACAGTCGCCAAA
TACCGCGAAGTGTTGAAGATTCCGCCAGTCAATCTCCGTAAGTCCCTCTGA

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
  AlphaFold DB A0A6M3ZW81

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