Detailed information    

insolico Bioinformatically predicted

Overview

Name   rpoN/rpoN1   Type   Machinery gene
Locus tag   U0027_RS00045 Genome accession   NZ_CP139997
Coordinates   7784..9334 (-) Length   516 a.a.
NCBI ID   WP_020811804.1    Uniprot ID   A0ABD5LCB2
Organism   Agrobacterium tumefaciens strain HAMBI 105     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 2784..14334
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  U0027_RS00015 (U0027_00015) rdgB 2997..3641 (-) 645 WP_003503799.1 RdgB/HAM1 family non-canonical purine NTP pyrophosphatase -
  U0027_RS00020 (U0027_00020) rph 3659..4375 (-) 717 WP_060727054.1 ribonuclease PH -
  U0027_RS00025 (U0027_00025) hrcA 4511..5602 (+) 1092 WP_060727053.1 heat-inducible transcriptional repressor HrcA -
  U0027_RS00030 (U0027_00030) grpE 5717..6352 (+) 636 WP_003503794.1 nucleotide exchange factor GrpE -
  U0027_RS00035 (U0027_00035) ptsN 6433..6894 (-) 462 WP_003503792.1 PTS IIA-like nitrogen regulatory protein PtsN -
  U0027_RS00040 (U0027_00040) hpf 6977..7549 (-) 573 WP_003503790.1 ribosome hibernation-promoting factor, HPF/YfiA family -
  U0027_RS00045 (U0027_00045) rpoN/rpoN1 7784..9334 (-) 1551 WP_020811804.1 RNA polymerase factor sigma-54 Machinery gene
  U0027_RS00050 (U0027_00050) lptB 9488..10297 (-) 810 WP_003503786.1 LPS export ABC transporter ATP-binding protein -
  U0027_RS00055 (U0027_00055) - 10307..10870 (-) 564 WP_003503784.1 LptA/OstA family protein -
  U0027_RS00060 (U0027_00060) lptC 10884..11549 (-) 666 WP_020011067.1 LPS export ABC transporter periplasmic protein LptC -
  U0027_RS00065 (U0027_00065) sppA 11784..12737 (+) 954 WP_077998534.1 signal peptide peptidase SppA -
  U0027_RS00070 (U0027_00070) - 12764..13066 (+) 303 WP_003493505.1 integration host factor subunit beta -
  U0027_RS00075 (U0027_00075) - 13133..13474 (+) 342 WP_060722827.1 LapA family protein -

Sequence

Protein


Download         Length: 516 a.a.        Molecular weight: 56826.05 Da        Isoelectric Point: 4.4686

>NTDB_id=832908 U0027_RS00045 WP_020811804.1 7784..9334(-) (rpoN/rpoN1) [Agrobacterium tumefaciens strain HAMBI 105]
MALSASLLLRQNQSLVMTPQLMQSIQLLQMTHFELTQFIAQEVERNPLLEIAANDGDLSSDAPVEAESFGDADIEGSERS
ATVTSDSDDWYGDRAANLGEQLDTSFENVFPDDAEPRKADAPELAGQWKSMPGQESGESYDLDDFVAARQSLGDHLNQQL
PLAISAAEDRMIADALIGQLDETGYIAADAVDDVAERLGAAPSAVEHVLKTLQGFDPPGVFSRSLSECLAIQLAQKDRLD
PAMRAFVDNLELLAKRDFASLKKICGVDEEDLLDMLAEIRTLNPRPGAGYDSMVSETIVPDIIVRPSSTGGWLVEINPET
LPRVLINQSYFAEVSKHKARAGEDQDFLAECMQTAHWLTRSLDQRARTIMKVATEIVRQQDAFLVNGVDQLRPLNLKTVA
DAIKMHESTVSRVTSKKYMLTPRGLFELKYFFSVSISAVEGGDSHSAEAVRHRIKAMIAQEAAEAVLSDDDIVDNLKKSG
IDIARRTVAKYREAMNIPSSVQRRREKKAQAKLSAF

Nucleotide


Download         Length: 1551 bp        

>NTDB_id=832908 U0027_RS00045 WP_020811804.1 7784..9334(-) (rpoN/rpoN1) [Agrobacterium tumefaciens strain HAMBI 105]
ATGGCATTGTCTGCCAGCCTTTTGCTGCGTCAAAACCAGTCTCTCGTGATGACACCGCAGCTGATGCAGTCCATCCAGCT
GCTTCAGATGACGCATTTCGAGTTGACGCAGTTCATCGCGCAGGAGGTGGAGCGCAATCCACTGCTGGAAATTGCGGCAA
ACGATGGCGATTTGAGCAGCGATGCCCCGGTAGAGGCGGAGAGTTTCGGCGACGCGGACATCGAAGGCTCGGAGAGATCC
GCCACGGTGACATCAGACAGTGACGACTGGTATGGCGATCGCGCCGCAAATCTCGGCGAGCAACTGGATACCAGCTTCGA
AAACGTCTTTCCCGACGATGCGGAGCCCAGAAAAGCCGATGCGCCCGAACTGGCCGGCCAATGGAAATCCATGCCCGGCC
AGGAGTCCGGGGAAAGTTATGACCTCGATGATTTCGTCGCGGCCAGACAGAGCCTCGGCGACCACCTTAATCAGCAATTG
CCGCTCGCCATATCAGCCGCCGAGGACCGGATGATCGCCGATGCGCTGATCGGCCAGCTCGATGAAACCGGCTATATTGC
GGCTGATGCCGTCGATGATGTCGCCGAACGGCTGGGAGCGGCGCCGTCGGCGGTCGAGCACGTCCTGAAGACGCTTCAGG
GCTTCGACCCACCGGGTGTATTTTCTCGTTCCCTGAGCGAATGTCTGGCGATCCAGCTGGCCCAGAAGGATCGGCTCGAC
CCGGCCATGCGGGCTTTCGTCGATAATCTGGAACTTCTGGCGAAACGCGACTTCGCCTCCTTGAAAAAAATCTGCGGCGT
CGATGAGGAAGACCTGCTCGATATGCTGGCGGAAATCCGCACGCTCAACCCCCGCCCCGGCGCAGGTTACGACTCGATGG
TTTCGGAGACCATCGTTCCCGACATTATCGTTCGCCCCTCCTCCACCGGCGGCTGGCTGGTGGAAATCAACCCCGAGACC
CTGCCGCGCGTGCTCATCAATCAGAGTTATTTCGCCGAGGTGTCGAAACATAAGGCGCGCGCGGGCGAGGATCAGGATTT
TCTGGCCGAATGCATGCAGACGGCCCATTGGCTGACCCGCAGCCTAGACCAGCGCGCCCGGACAATCATGAAGGTGGCGA
CGGAAATCGTGCGCCAGCAGGATGCCTTCCTCGTCAATGGTGTCGACCAGCTACGCCCGCTGAACCTCAAGACGGTGGCC
GACGCCATCAAGATGCATGAATCCACCGTCAGCCGGGTAACGTCCAAAAAATACATGCTGACGCCACGCGGGCTGTTCGA
GCTCAAATATTTCTTCAGCGTCTCGATCAGCGCCGTGGAAGGCGGAGACAGCCATTCAGCGGAAGCGGTGCGTCACCGCA
TCAAGGCCATGATCGCGCAGGAGGCCGCCGAGGCAGTCCTTTCCGACGACGACATCGTCGACAATCTGAAAAAGAGCGGC
ATCGATATCGCCCGCCGCACGGTCGCCAAATATCGCGAGGCGATGAACATCCCATCCTCCGTGCAGAGGCGCCGGGAAAA
GAAGGCGCAGGCCAAGCTTTCCGCCTTCTGA

Domains

Predicted by InterProScan.

Sigma-54 factor, core binding domain (Sigma54_CBD)

(143-330)

Sigma-54, DNA binding domain (Sigma54_DBD)

(346-505)

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

(7-51)


Secondary structure

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



3D structure

Source ID Structure
  AlphaFold DB A0ABD5LCB2

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

35.283

100

0.362