Detailed information    

insolico Bioinformatically predicted

Overview

Name   rpoN/rpoN1   Type   Machinery gene
Locus tag   LDZ24_RS01280 Genome accession   NZ_CP084250
Coordinates   265269..266786 (-) Length   505 a.a.
NCBI ID   WP_175939332.1    Uniprot ID   -
Organism   Caballeronia sp. Sq4a     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 260269..271786
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  LDZ24_RS01255 - 261071..261712 (-) 642 WP_248321076.1 LON peptidase substrate-binding domain-containing protein -
  LDZ24_RS01260 rapZ 261747..262643 (-) 897 WP_206467446.1 RNase adapter RapZ -
  LDZ24_RS01265 hprK 262723..263691 (-) 969 WP_008351692.1 HPr(Ser) kinase/phosphatase -
  LDZ24_RS01270 ptsN 263885..264340 (-) 456 WP_175939328.1 PTS IIA-like nitrogen regulatory protein PtsN -
  LDZ24_RS01275 hpf 264727..265086 (-) 360 WP_159835157.1 ribosome hibernation-promoting factor, HPF/YfiA family -
  LDZ24_RS01280 rpoN/rpoN1 265269..266786 (-) 1518 WP_175939332.1 RNA polymerase factor sigma-54 Machinery gene
  LDZ24_RS01285 lptB 266959..267726 (-) 768 WP_248321078.1 LPS export ABC transporter ATP-binding protein -
  LDZ24_RS01290 lptA 267738..268448 (-) 711 WP_248321080.1 lipopolysaccharide transport periplasmic protein LptA -
  LDZ24_RS01295 lptC 268478..269080 (-) 603 WP_244847815.1 LPS export ABC transporter periplasmic protein LptC -
  LDZ24_RS01300 - 269085..269621 (-) 537 WP_248321082.1 HAD family hydrolase -
  LDZ24_RS01305 kdsD 269621..270604 (-) 984 WP_175939340.1 arabinose 5-phosphate isomerase KdsD -

Sequence

Protein


Download         Length: 505 a.a.        Molecular weight: 55441.42 Da        Isoelectric Point: 4.8767

>NTDB_id=610338 LDZ24_RS01280 WP_175939332.1 265269..266786(-) (rpoN/rpoN1) [Caballeronia sp. Sq4a]
MKASLQLRLSQHLALTPQLQQSIRLLQLSTLELQQEVAMAVAQNPLLENDDDWIASPLRVAADGSLIATAGASSAAPEPM
MSNGSTSSSSSSERSESSEPQGVDEYNGLSSDGGTDSSNWNLEDYGRSNNASDDDDLPPLQIHESTTTLRDHLTAQLRMT
QANQRDRALITFLIESLDEDGYLTSSLEEIQADLPDELEVDVDELSAALALLQSFDPPGVGGRSASECLKLQLLRLDPSP
TRTLALEIVTNHLELLAARDFTRLRKQLKASDDALRDAHVLIRSLEPFPGAAYGKSEADYVVPDILVRKSASGWTAELNP
EIVPRLRINHLYANILRNNRGDPGSGSLRQQLQEARWLIKNIQQRFETILRVAQAIVERQKNFFAHGEIAMRPLVLREIA
DTLGLHESTVSRVTTGKYMLTPFGTLEFKYFFGSHVSTDTGGAASSTAIRALIKQLIGAEDPKTPLSDSRIAELLAEQGF
VVARRTVAKYREALKIPAVNLRKSL

Nucleotide


Download         Length: 1518 bp        

>NTDB_id=610338 LDZ24_RS01280 WP_175939332.1 265269..266786(-) (rpoN/rpoN1) [Caballeronia sp. Sq4a]
ATGAAAGCCAGCCTCCAACTTCGCCTATCGCAGCATCTTGCGCTCACCCCGCAACTACAGCAGTCCATCCGGCTGCTGCA
GTTGTCGACGCTCGAACTGCAGCAGGAAGTGGCAATGGCCGTCGCGCAGAACCCGCTGCTGGAAAACGACGACGACTGGA
TCGCGAGCCCGCTTCGCGTGGCCGCGGACGGTTCGCTGATTGCCACGGCCGGCGCGAGCAGTGCCGCGCCCGAGCCGATG
ATGAGCAACGGCTCCACGTCCAGCTCGTCGAGTTCCGAACGGTCGGAAAGCAGCGAGCCGCAGGGCGTCGACGAATACAA
CGGCCTCTCGTCCGACGGCGGGACGGATTCCAGCAACTGGAATCTCGAAGACTACGGCCGCTCGAACAACGCCTCCGACG
ACGACGACCTGCCGCCGCTGCAAATCCACGAATCGACCACGACGCTGCGCGACCATCTCACCGCGCAACTGCGCATGACG
CAGGCGAATCAGCGCGACCGCGCGCTGATCACGTTCCTGATCGAATCGCTGGATGAGGACGGGTATCTCACGTCGTCGCT
CGAAGAAATTCAGGCAGATTTGCCGGACGAACTCGAAGTCGATGTCGACGAACTGAGCGCGGCATTGGCCTTGCTCCAGA
GTTTCGACCCGCCGGGTGTCGGCGGCCGGTCGGCGTCGGAGTGTCTGAAGCTGCAACTGCTGCGGCTCGATCCGTCGCCC
ACGCGAACGCTCGCGCTCGAAATCGTCACGAACCATCTGGAACTGCTCGCCGCGCGCGACTTCACGCGCTTGCGCAAGCA
ACTGAAGGCAAGCGACGACGCGCTGCGGGACGCGCACGTGCTGATCCGGTCGCTGGAGCCGTTTCCCGGCGCCGCGTACG
GCAAGAGCGAAGCGGACTACGTGGTGCCGGACATTCTGGTGCGCAAATCCGCGAGCGGATGGACCGCGGAACTGAACCCG
GAGATCGTGCCGCGGCTGCGGATCAACCATCTGTACGCGAACATTTTGCGCAATAACCGTGGCGATCCGGGCAGCGGTTC
ACTACGGCAACAGCTTCAGGAAGCGCGCTGGCTGATCAAGAATATCCAGCAGCGTTTCGAGACGATTCTTCGCGTCGCGC
AGGCGATCGTCGAGCGTCAGAAGAACTTTTTTGCGCATGGTGAAATCGCCATGCGGCCCTTGGTTTTGCGGGAGATTGCT
GATACGCTGGGTTTACACGAATCGACGGTTTCCCGTGTGACTACCGGGAAGTACATGCTCACCCCATTCGGGACGCTTGA
ATTTAAGTACTTCTTTGGATCGCACGTTTCCACCGACACGGGCGGCGCCGCATCGTCCACGGCGATCCGGGCCCTCATCA
AGCAACTGATAGGAGCGGAAGACCCCAAAACTCCTCTTTCAGACAGCCGCATCGCCGAACTGCTGGCGGAACAAGGCTTC
GTGGTTGCGCGGCGCACCGTCGCCAAGTATCGCGAGGCGCTGAAAATCCCCGCAGTCAATCTGCGCAAGTCTCTTTGA

Domains

Predicted by InterproScan.

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

(4-48)

Sigma-54, DNA binding domain (Sigma54_DBD)

(348-503)

Sigma-54 factor, core binding domain (Sigma54_CBD)

(142-332)


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

67.194

100

0.673