Detailed information    

insolico Bioinformatically predicted

Overview

Name   rpoN/rpoN1   Type   Machinery gene
Locus tag   LDZ21_RS12370 Genome accession   NZ_CP084271
Coordinates   2590471..2591988 (+) Length   505 a.a.
NCBI ID   WP_244793564.1    Uniprot ID   -
Organism   Caballeronia grimmiae strain Lep1A1     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 2585471..2596988
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  LDZ21_RS12345 kdsD 2586658..2587641 (+) 984 WP_244793561.1 arabinose 5-phosphate isomerase KdsD -
  LDZ21_RS12350 - 2587641..2588180 (+) 540 WP_244793562.1 HAD hydrolase family protein -
  LDZ21_RS12355 lptC 2588185..2588787 (+) 603 WP_035961931.1 LPS export ABC transporter periplasmic protein LptC -
  LDZ21_RS12360 lptA 2588904..2589530 (+) 627 WP_244794840.1 lipopolysaccharide transport periplasmic protein LptA -
  LDZ21_RS12365 lptB 2589527..2590309 (+) 783 WP_244793563.1 LPS export ABC transporter ATP-binding protein -
  LDZ21_RS12370 rpoN/rpoN1 2590471..2591988 (+) 1518 WP_244793564.1 RNA polymerase factor sigma-54 Machinery gene
  LDZ21_RS12375 raiA 2592173..2592535 (+) 363 WP_035961789.1 ribosome-associated translation inhibitor RaiA -
  LDZ21_RS12380 - 2592611..2592886 (+) 276 WP_244793565.1 hypothetical protein -
  LDZ21_RS12385 ptsN 2592945..2593400 (+) 456 WP_035961933.1 PTS IIA-like nitrogen regulatory protein PtsN -
  LDZ21_RS12390 hprK 2593584..2594552 (+) 969 WP_008351692.1 HPr(Ser) kinase/phosphatase -
  LDZ21_RS12395 rapZ 2594629..2595525 (+) 897 WP_244793566.1 RNase adapter RapZ -
  LDZ21_RS12400 - 2595556..2596188 (+) 633 WP_035961792.1 LON peptidase substrate-binding domain-containing protein -

Sequence

Protein


Download         Length: 505 a.a.        Molecular weight: 55389.30 Da        Isoelectric Point: 4.8740

>NTDB_id=610396 LDZ21_RS12370 WP_244793564.1 2590471..2591988(+) (rpoN/rpoN1) [Caballeronia grimmiae strain Lep1A1]
MKASLQLRLSQHLALTPQLQQSIRLLQLSTLELQQEVAMAVAQNPLLENEDDWIASPLRVAADGSLITSPAPSGASSEPM
TSNGSSSSSSSSERSENSEPQGVDEYNGMSSDGGTDSSSWNLEDYGRSNNASDDDDLPPLQIHESTTTLRDHLTAQLRMT
QANQRDRALITFLIESLDEDGYLTASLDEIQADLPDELEVDVDELSAALALLQSFDPPGVGGRSASECLKLQLLRLDASP
TRTLALDIVTNHLELLAARDFTRLRKQLKASDDALRDAHLLIKSLEPFPGAAYGKSEADYVVPDILVRKTSGGWTAELNP
EIVPKLRINHLYANILRNNRGDPGSGSLRQQLQEARWLIKNIQQRFETILRVAQAIVERQKNFFAHGEIAMRPLVLREIA
DTLGLHESTVSRVTSGKYMLTPFGTLEFKYFFGSHVSTDTGGAASSTAIRALIKQLIGAEDPKTPLSDSRIAELLAEQGF
VVARRTVAKYREALRIPAVNLRKSL

Nucleotide


Download         Length: 1518 bp        

>NTDB_id=610396 LDZ21_RS12370 WP_244793564.1 2590471..2591988(+) (rpoN/rpoN1) [Caballeronia grimmiae strain Lep1A1]
ATGAAAGCCAGCCTCCAACTCCGCCTATCGCAGCATCTTGCGCTTACCCCGCAACTGCAGCAGTCCATCCGGCTGCTGCA
GCTGTCGACGCTCGAATTGCAGCAGGAAGTGGCCATGGCCGTCGCGCAGAACCCGCTGCTGGAAAACGAGGACGACTGGA
TCGCAAGCCCGCTGCGCGTCGCCGCCGATGGCTCGCTCATCACGTCGCCGGCTCCCAGCGGCGCCTCGTCCGAGCCGATG
ACGAGCAACGGCTCGAGCTCGAGTTCATCGAGTTCCGAACGTTCGGAAAACAGCGAGCCGCAGGGCGTCGACGAATACAA
CGGCATGAGTTCGGACGGCGGCACGGATTCCAGTTCGTGGAATCTCGAAGACTATGGCCGCTCGAACAACGCATCGGACG
ACGACGATCTCCCGCCGCTGCAAATTCACGAATCCACGACCACGCTGCGCGATCATCTGACCGCGCAACTTCGCATGACG
CAGGCGAATCAGCGTGACCGCGCGCTGATCACGTTCCTGATCGAATCGCTGGACGAGGACGGTTACCTTACGGCTTCGCT
CGACGAGATCCAGGCGGACTTGCCCGACGAACTCGAAGTCGATGTCGACGAACTCAGCGCGGCACTGGCGTTGCTACAGA
GCTTCGACCCGCCGGGTGTCGGCGGGCGGTCGGCGTCGGAATGCCTGAAACTGCAGTTGCTGCGGCTCGATGCGTCGCCT
ACGCGAACGCTGGCGCTGGATATCGTCACGAATCATCTGGAGTTGCTTGCTGCGCGCGACTTCACGCGCCTGCGCAAGCA
ACTCAAGGCAAGCGACGACGCGCTGCGGGACGCGCACTTGCTGATCAAGTCGCTGGAGCCGTTTCCGGGCGCCGCGTACG
GGAAAAGCGAAGCGGACTACGTGGTGCCCGACATTCTCGTGCGCAAGACGTCGGGCGGCTGGACGGCGGAGCTGAATCCG
GAAATCGTGCCGAAGCTGCGGATCAACCATCTGTACGCGAACATTTTGCGGAACAATCGCGGCGATCCGGGCAGCGGTTC
GCTGCGTCAGCAACTGCAGGAAGCACGCTGGCTGATCAAGAACATCCAGCAGCGTTTCGAGACGATTCTTCGTGTCGCAC
AGGCCATTGTCGAACGTCAGAAGAACTTCTTCGCACATGGCGAAATCGCCATGCGGCCCTTGGTTTTAAGGGAAATTGCT
GATACGCTGGGCTTGCACGAATCAACGGTTTCGCGCGTGACCAGCGGGAAGTACATGCTCACCCCATTCGGGACGCTTGA
ATTTAAGTACTTCTTTGGATCGCACGTTTCAACCGACACAGGGGGTGCGGCGTCGTCAACGGCGATCCGGGCCCTCATCA
AGCAACTGATAGGAGCGGAAGACCCCAAAACTCCTCTTTCAGACAGCCGCATTGCCGAACTGCTGGCGGAACAGGGTTTC
GTGGTTGCGCGGCGCACCGTTGCGAAGTACCGCGAAGCCCTCAGAATCCCCGCAGTGAATCTGCGCAAGTCTCTTTGA

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

66.208

100

0.667