Detailed information    

insolico Bioinformatically predicted

Overview

Name   rpoN/rpoN1   Type   Machinery gene
Locus tag   LDN84_RS05625 Genome accession   NZ_AP024238
Coordinates   1209562..1211151 (+) Length   529 a.a.
NCBI ID   WP_223909624.1    Uniprot ID   -
Organism   Rhodoferax lithotrophicus strain MIZ03     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 1204562..1216151
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  LDN84_RS05600 (MIZ03_1199) argS 1204724..1206421 (+) 1698 WP_223909610.1 arginine--tRNA ligase -
  LDN84_RS05605 (MIZ03_1200) - 1206448..1207173 (+) 726 WP_223909613.1 SPOR domain-containing protein -
  LDN84_RS05610 (MIZ03_1201) - 1207233..1207886 (+) 654 WP_223909616.1 thiol:disulfide interchange protein DsbA/DsbL -
  LDN84_RS05615 (MIZ03_1202) lptA 1207964..1208590 (+) 627 WP_223909619.1 lipopolysaccharide transport periplasmic protein LptA -
  LDN84_RS05620 (MIZ03_1203) lptB 1208590..1209402 (+) 813 WP_223909621.1 LPS export ABC transporter ATP-binding protein -
  LDN84_RS05625 (MIZ03_1205) rpoN/rpoN1 1209562..1211151 (+) 1590 WP_223909624.1 RNA polymerase factor sigma-54 Machinery gene
  LDN84_RS05630 (MIZ03_1206) - 1211219..1212508 (+) 1290 WP_223909627.1 class I SAM-dependent RNA methyltransferase -
  LDN84_RS05635 (MIZ03_1207) - 1212519..1212953 (+) 435 WP_223909630.1 putative toxin-antitoxin system toxin component, PIN family -
  LDN84_RS05640 (MIZ03_1208) - 1213049..1214386 (+) 1338 WP_223912783.1 glutamine synthetase family protein -
  LDN84_RS05645 (MIZ03_1209) - 1214489..1215361 (-) 873 WP_223909633.1 hypothetical protein -

Sequence

Protein


Download         Length: 529 a.a.        Molecular weight: 58036.50 Da        Isoelectric Point: 4.6304

>NTDB_id=84222 LDN84_RS05625 WP_223909624.1 1209562..1211151(+) (rpoN/rpoN1) [Rhodoferax lithotrophicus strain MIZ03]
MKQGLSLRISQHLALTPQLQQSIRLLQLSTLELGSEVDQMLDENPFLERTAEEAERESFGLAQADVPVSSTDLEFENATT
SGATDAYSSSTTASKDVEESSFSAEDGPSWDGDGSVSLSPDDGEWGGEARAKGNNLSGDDEMDATELARNQESLQSFLHR
QALALRLSPEDQAALRFLIESLNDDGYLEDDLTELARGLAGDDAEQIEELVHHFTVALRLLHTLEPTGVGARGLAECLSL
QLAALQKDTDLDIDLDVVDVALRICAQPMDLLARRDIKHLMPLCEASEAMVRSAIGLIGRLEPKPGRRFVDVERNIVVPD
VLVVPVGQGGQMKFQVRLNPEVMPRLRVHDIYANALKGHKAGGNDAANFAALQQRLTEARWFIKNIQQRFDTILRVSSAI
VERQKSFFVHGELAMRPLVLREIADELGLHESTISRVTTAKYMATPFGTFELKYFFGSGLGTESGGNASSTAVRALIKQF
VAAESPKKPLSDNQIADMLKEQGIECARRTVAKYREGLRIAPASLRKEL

Nucleotide


Download         Length: 1590 bp        

>NTDB_id=84222 LDN84_RS05625 WP_223909624.1 1209562..1211151(+) (rpoN/rpoN1) [Rhodoferax lithotrophicus strain MIZ03]
ATGAAGCAAGGTCTTTCCCTTCGTATTTCCCAACATCTGGCACTCACGCCACAACTTCAGCAGTCGATCCGGCTGCTGCA
GCTCTCTACCTTGGAGCTCGGCAGTGAGGTGGATCAGATGCTGGATGAAAACCCGTTTCTGGAACGTACGGCTGAAGAGG
CTGAACGTGAATCCTTTGGCCTGGCGCAGGCAGATGTGCCTGTTAGTTCCACCGATCTGGAGTTTGAAAATGCTACTACT
TCAGGAGCTACTGACGCTTATTCATCAAGCACTACAGCCTCAAAAGATGTTGAAGAAAGCAGCTTTTCAGCAGAGGATGG
CCCTAGCTGGGATGGCGACGGCAGCGTCAGCCTGAGCCCGGACGACGGTGAATGGGGTGGTGAAGCGCGTGCCAAAGGCA
ACAACCTCAGTGGTGACGACGAGATGGATGCGACCGAGCTGGCGCGTAACCAGGAGTCGCTGCAAAGCTTTTTGCATCGT
CAGGCATTGGCACTGCGGCTCAGCCCCGAAGACCAGGCGGCCCTGCGGTTTTTGATCGAATCCCTCAATGATGACGGTTA
TCTGGAAGATGATCTGACTGAATTGGCACGTGGTTTGGCGGGAGATGATGCCGAGCAAATTGAAGAACTGGTGCATCATT
TCACTGTAGCCCTGCGTTTGCTGCACACCCTGGAGCCCACCGGCGTCGGTGCGCGTGGTTTGGCTGAATGCCTGAGCCTG
CAGCTTGCGGCCCTGCAAAAAGACACGGATCTGGACATTGATCTGGATGTGGTGGATGTGGCCCTGCGCATCTGCGCCCA
ACCGATGGATTTGCTGGCCCGGCGTGACATCAAGCACCTGATGCCGCTGTGTGAGGCCAGTGAAGCCATGGTGCGTAGCG
CGATTGGTCTGATTGGTCGTCTGGAACCCAAGCCGGGGCGCCGTTTTGTGGATGTGGAGCGCAACATCGTCGTGCCCGAT
GTGTTGGTGGTGCCCGTCGGCCAAGGTGGCCAGATGAAGTTCCAGGTGCGTCTGAATCCTGAAGTGATGCCACGCCTGCG
TGTCCATGACATCTATGCCAACGCGCTCAAAGGGCACAAAGCCGGGGGTAATGATGCGGCCAACTTTGCCGCCTTGCAGC
AGCGTTTGACTGAGGCACGCTGGTTCATCAAAAACATCCAGCAGCGTTTTGACACTATCCTGCGCGTCAGCAGCGCCATT
GTGGAGCGGCAAAAAAGCTTTTTTGTGCACGGCGAGCTGGCCATGCGCCCGCTGGTGCTGCGCGAAATTGCCGATGAACT
CGGTTTGCACGAGTCCACCATCAGCCGCGTCACCACCGCCAAATACATGGCCACACCGTTTGGCACGTTTGAGCTGAAGT
ATTTCTTTGGTTCCGGCCTGGGCACCGAGTCGGGTGGCAATGCTTCCAGCACGGCGGTGCGTGCCCTGATCAAGCAGTTT
GTGGCCGCCGAAAGTCCCAAAAAACCCTTGAGCGACAACCAGATCGCCGACATGCTCAAAGAGCAAGGCATCGAATGCGC
CCGCCGCACCGTGGCCAAATACCGCGAAGGTCTGCGTATTGCACCAGCTTCGCTCAGAAAAGAACTGTGA

Domains

Predicted by InterproScan.

Sigma-54 factor, core binding domain (Sigma54_CBD)

(145-352)

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

(5-48)

Sigma-54, DNA binding domain (Sigma54_DBD)

(372-527)


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

49.905

100

0.499

Multiple sequence alignment