Detailed information    

insolico Bioinformatically predicted

Overview

Name   rpoN/rpoN1   Type   Machinery gene
Locus tag   LT85_RS02280 Genome accession   NZ_CP009962
Coordinates   528636..530117 (-) Length   493 a.a.
NCBI ID   WP_038484764.1    Uniprot ID   A0A0A1F7E8
Organism   Collimonas arenae strain Cal35     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 523636..535117
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  LT85_RS02260 (LT85_0450) aroKB 524191..525954 (+) 1764 WP_081991940.1 bifunctional shikimate kinase/3-dehydroquinate synthase AroKB -
  LT85_RS02265 (LT85_0451) - 525951..527099 (+) 1149 WP_038484755.1 deoxyguanosinetriphosphate triphosphohydrolase -
  LT85_RS02270 (LT85_0452) - 527194..527883 (+) 690 WP_038484758.1 DUF4197 domain-containing protein -
  LT85_RS02275 (LT85_0453) raiA 528122..528472 (-) 351 WP_038484761.1 ribosome-associated translation inhibitor RaiA -
  LT85_RS02280 (LT85_0454) rpoN/rpoN1 528636..530117 (-) 1482 WP_038484764.1 RNA polymerase factor sigma-54 Machinery gene
  LT85_RS02285 (LT85_0455) lptB 530228..530974 (-) 747 WP_038484767.1 LPS export ABC transporter ATP-binding protein -
  LT85_RS02290 (LT85_0456) lptA 530971..531516 (-) 546 WP_038484770.1 lipopolysaccharide transport periplasmic protein LptA -
  LT85_RS02295 (LT85_0457) lptC 531572..532189 (-) 618 WP_038484773.1 LPS export ABC transporter periplasmic protein LptC -
  LT85_RS02300 (LT85_0458) - 532186..532698 (-) 513 WP_253273783.1 HAD family hydrolase -
  LT85_RS02305 (LT85_0459) - 532797..533828 (-) 1032 WP_038494800.1 SIS domain-containing protein -

Sequence

Protein


Download         Length: 493 a.a.        Molecular weight: 54928.50 Da        Isoelectric Point: 5.1827

>NTDB_id=133185 LT85_RS02280 WP_038484764.1 528636..530117(-) (rpoN/rpoN1) [Collimonas arenae strain Cal35]
MKQSLQLRTSQHLALTPQLQQSIRLLQLSTLELHQELEQILSDNPLLERVDDPLDNSVRLLADGAISGSTSTMDAPVGDS
EVSSSPAEGEANFDAPAAPESAPENADSDWSFDDIARSAKSSDDEDARPQLEAHESTLREHLQHQMRETVHDLRDRALVE
LMIDALDDNGYLEESLEEILGRLPVELEIAIEELSMALKMVQSFDPAGVGARNAAECLALQIRRFVKLPFVTRRLALAIV
QDHLMLFAQRDFNKIKKALDCDDEDLREAQAVIKQCNPHPGAPFAANASDYVVPDVIVRRGKQGWQVMLNNDVMPRLRVN
VLYANILKQSKGDGALTSQLQEAKWLIKNMRQRFDTILRVAQAIVERQRNFFSHGAVAMRPLVLREIADTLGLHESTISR
VTTQKYMLTPHGMFELKYFFGSHVATEAGGEASSTAIRALIKQLIGAEDSRNPFSDSKIADMLAEQGMVVARRTVAKYRE
ALKIPSVNLRKAL

Nucleotide


Download         Length: 1482 bp        

>NTDB_id=133185 LT85_RS02280 WP_038484764.1 528636..530117(-) (rpoN/rpoN1) [Collimonas arenae strain Cal35]
ATGAAACAATCACTCCAGCTTCGCACCTCTCAACATCTTGCGCTGACCCCGCAGCTGCAACAGTCGATCCGTCTGTTGCA
GCTGTCGACGCTTGAATTGCATCAGGAACTGGAACAGATCTTATCCGACAATCCACTGCTCGAGCGGGTCGACGATCCAC
TCGACAATTCGGTGCGCCTGCTGGCTGATGGCGCCATCAGCGGCAGCACCTCCACCATGGATGCGCCGGTAGGCGACAGC
GAGGTCAGCAGCTCGCCGGCCGAAGGCGAAGCCAATTTCGATGCGCCCGCAGCGCCTGAGAGCGCTCCGGAGAACGCCGA
TAGCGACTGGAGTTTTGACGATATCGCGCGTAGCGCGAAGAGCTCGGACGATGAAGATGCGCGGCCCCAGCTGGAGGCCC
ACGAATCCACGTTGCGCGAACATCTGCAACACCAAATGCGCGAGACAGTGCACGATCTGCGCGATCGCGCCCTGGTCGAA
CTGATGATCGATGCCCTCGACGATAACGGCTATCTGGAAGAGTCGCTGGAAGAAATCCTGGGGCGCTTGCCGGTTGAGCT
GGAGATCGCTATCGAAGAACTGTCGATGGCGTTGAAAATGGTGCAGAGCTTCGATCCTGCCGGTGTCGGCGCACGCAATG
CGGCAGAATGCCTGGCCTTGCAGATCAGGCGCTTTGTCAAATTGCCATTTGTCACGCGTCGCCTGGCATTGGCGATTGTG
CAAGATCACCTGATGCTTTTTGCGCAACGCGATTTCAATAAAATCAAGAAGGCTCTGGATTGCGACGACGAGGATCTGCG
CGAGGCGCAAGCCGTCATCAAACAATGCAACCCGCACCCCGGTGCGCCGTTCGCGGCCAATGCATCCGATTATGTGGTGC
CGGATGTGATCGTCCGGCGCGGCAAACAGGGCTGGCAGGTCATGCTTAATAATGACGTCATGCCAAGGCTCAGGGTGAAT
GTCCTGTATGCCAATATTTTAAAGCAGAGCAAGGGCGACGGCGCCCTTACATCCCAGTTACAGGAAGCCAAGTGGCTGAT
CAAGAACATGCGGCAGCGCTTCGACACTATCTTGCGCGTTGCACAAGCGATAGTGGAACGCCAGAGGAACTTTTTTTCGC
ACGGGGCGGTCGCCATGCGGCCGCTTGTGTTGCGCGAAATAGCTGATACACTGGGTCTACACGAGAGTACTATTTCTCGT
GTAACCACTCAGAAATACATGCTCACTCCCCACGGGATGTTTGAACTGAAGTATTTCTTCGGCAGCCATGTTGCTACTGA
GGCAGGTGGAGAGGCTTCCTCAACAGCAATACGGGCACTCATTAAGCAACTCATAGGAGCGGAAGATTCAAGAAATCCTT
TCTCTGACAGCAAGATTGCCGACATGCTTGCGGAACAAGGTATGGTGGTCGCCCGCCGCACCGTCGCAAAATATCGCGAA
GCATTAAAAATTCCGTCTGTTAATCTGCGCAAGGCCTTGTAG

Domains

Predicted by InterproScan.

Sigma-54 factor, core binding domain (Sigma54_CBD)

(131-323)

Sigma-54, DNA binding domain (Sigma54_DBD)

(336-491)

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

(4-48)


Secondary structure

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



3D structure

Source ID Structure
  AlphaFold DB A0A0A1F7E8

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

59.091

100

0.606

Multiple sequence alignment