Detailed information    

insolico Bioinformatically predicted

Overview

Name   rpoN/rpoN1   Type   Machinery gene
Locus tag   DCO17_RS02915 Genome accession   NZ_CP028942
Coordinates   541488..542873 (-) Length   461 a.a.
NCBI ID   WP_173955311.1    Uniprot ID   A0A6M9PUD3
Organism   Polynucleobacter tropicus strain MWH-UH21B     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 536488..547873
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  DCO17_RS02875 (DCO17_02845) - 536589..536921 (-) 333 WP_173955303.1 hypothetical protein -
  DCO17_RS02880 (DCO17_02850) - 537164..538189 (+) 1026 WP_173955304.1 helix-turn-helix transcriptional regulator -
  DCO17_RS02885 (DCO17_02855) - 538225..538698 (+) 474 WP_173955305.1 polymer-forming cytoskeletal protein -
  DCO17_RS02890 (DCO17_02860) - 538719..539153 (+) 435 WP_173955306.1 hypothetical protein -
  DCO17_RS02895 (DCO17_02865) - 539199..539471 (-) 273 WP_173955307.1 hypothetical protein -
  DCO17_RS02900 (DCO17_02870) - 539743..540282 (+) 540 WP_173955308.1 hypothetical protein -
  DCO17_RS02905 (DCO17_02875) - 540282..540773 (+) 492 WP_173955309.1 hypothetical protein -
  DCO17_RS02910 (DCO17_02880) - 540795..541469 (+) 675 WP_173955310.1 GGDEF domain-containing protein -
  DCO17_RS02915 (DCO17_02885) rpoN/rpoN1 541488..542873 (-) 1386 WP_173955311.1 RNA polymerase factor sigma-54 Machinery gene
  DCO17_RS02920 (DCO17_02890) - 543194..543376 (+) 183 WP_173955312.1 hypothetical protein -
  DCO17_RS02925 (DCO17_02895) - 543557..543979 (+) 423 WP_173955313.1 surface-adhesin E family protein -
  DCO17_RS02930 (DCO17_02900) - 543989..544747 (+) 759 WP_173955314.1 hypothetical protein -
  DCO17_RS02935 (DCO17_02905) - 544791..545600 (+) 810 WP_173955315.1 hypothetical protein -
  DCO17_RS02940 (DCO17_02910) - 545608..546636 (+) 1029 WP_173955316.1 PDZ domain-containing protein -
  DCO17_RS02945 (DCO17_02915) - 546633..547040 (+) 408 WP_173955317.1 hypothetical protein -

Sequence

Protein


Download         Length: 461 a.a.        Molecular weight: 52216.43 Da        Isoelectric Point: 5.4282

>NTDB_id=288706 DCO17_RS02915 WP_173955311.1 541488..542873(-) (rpoN/rpoN1) [Polynucleobacter tropicus strain MWH-UH21B]
MAISLNTRVSQTVSLTPQLQQSIKLLQLSNSELEQELAKAAEENPLLEFEPNPEIESNHSQSNERVEVAQQSWGGSQISQ
DDDEDWGERYERVAHKQTLLEYLDEQIHLLNINPEEQSLIAYMAGCLDDRGYLPEDLKAIHTDIASQLAENTSFKHIEKA
LAKLQTLDPPGIGARDLAECLSLQIDRILENVKVDIAAWELAKEIVTSHLSKVGSKDWQKIKQASGKSEAEVLKAVELIR
TLQHNPGSQFERENDQWILPDVVVKIKQNRWIVESNPNAKPRLTLNNEYARILKENGQKKIDGALKQKMLEASWLVKNIA
QREETIQRVAQAIVERQQQFFSMGAIGMKPLVLREIAEELEMHESTISRVTTQKYLACPLGIFEFKYFFSSQVSTEKGGG
ISSTAIQALIKKIVEEESAKKPISDTQIAQLLSEQGYIIARRTVAKYRDVLRIPPVHLRKQ

Nucleotide


Download         Length: 1386 bp        

>NTDB_id=288706 DCO17_RS02915 WP_173955311.1 541488..542873(-) (rpoN/rpoN1) [Polynucleobacter tropicus strain MWH-UH21B]
ATGGCCATCTCACTTAATACCCGAGTCAGCCAGACGGTAAGCCTTACCCCGCAATTACAGCAATCTATCAAGCTTTTGCA
ACTCTCCAACTCAGAGTTGGAGCAAGAATTAGCCAAGGCGGCTGAAGAAAACCCGCTACTAGAATTTGAACCCAACCCCG
AAATTGAATCCAACCACTCTCAATCCAATGAGCGTGTTGAGGTTGCTCAACAGTCTTGGGGAGGCAGTCAAATCTCCCAA
GATGATGATGAAGATTGGGGGGAGCGCTATGAGCGTGTCGCTCACAAGCAAACCCTATTGGAATATTTGGATGAACAAAT
TCATCTTCTGAATATCAACCCAGAAGAGCAATCCTTAATTGCCTATATGGCCGGATGTCTCGATGATCGCGGCTACCTTC
CAGAAGACCTTAAGGCCATACACACAGATATTGCATCCCAACTAGCCGAAAATACTTCATTCAAGCACATTGAAAAAGCG
CTAGCTAAGTTACAGACACTCGATCCACCTGGAATTGGCGCTCGTGATCTTGCAGAATGCCTTTCCCTTCAGATTGATCG
CATTCTAGAAAACGTCAAAGTTGATATTGCCGCATGGGAGTTAGCAAAAGAAATTGTTACATCTCATTTATCAAAGGTGG
GCTCTAAGGACTGGCAGAAAATTAAACAGGCTAGCGGCAAATCTGAAGCAGAAGTACTCAAAGCCGTCGAACTCATTCGG
ACATTGCAACACAATCCAGGCTCTCAATTTGAGCGCGAGAATGATCAATGGATTTTGCCGGATGTCGTCGTCAAAATTAA
ACAAAATCGCTGGATTGTGGAATCAAACCCCAATGCAAAACCTCGCCTCACTTTAAACAACGAATACGCCAGGATCCTAA
AAGAAAATGGGCAAAAGAAAATTGATGGCGCCCTAAAGCAAAAAATGCTGGAAGCCAGTTGGCTAGTAAAAAATATTGCT
CAACGTGAAGAAACAATTCAAAGGGTGGCACAAGCAATAGTAGAGAGACAGCAGCAATTTTTCTCGATGGGCGCAATCGG
CATGAAACCCTTAGTTCTTCGTGAAATTGCTGAAGAATTGGAAATGCATGAATCGACTATTTCGAGAGTTACAACCCAAA
AATACCTAGCATGCCCTTTAGGGATCTTTGAATTCAAATACTTTTTTAGCAGTCAAGTCAGCACAGAAAAAGGCGGGGGG
ATTTCGTCCACCGCAATACAGGCGCTAATTAAAAAAATTGTTGAGGAAGAATCTGCGAAGAAACCCATTTCCGATACCCA
GATTGCGCAACTATTAAGCGAACAAGGTTACATTATCGCGCGACGTACTGTAGCAAAATATCGAGACGTCCTTCGCATTC
CACCCGTGCATCTGCGCAAACAATAG

Domains

Predicted by InterproScan.

Sigma-54 factor, core binding domain (Sigma54_CBD)

(92-289)

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

(4-48)

Sigma-54, DNA binding domain (Sigma54_DBD)

(305-460)


Secondary structure

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



3D structure

Source ID Structure
  AlphaFold DB A0A6M9PUD3

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

43.874

100

0.482

Multiple sequence alignment