Detailed information    

insolico Bioinformatically predicted

Overview

Name   rpoN/rpoN1   Type   Machinery gene
Locus tag   LCH15_RS23690 Genome accession   NZ_CP083938
Coordinates   5123434..5125035 (-) Length   533 a.a.
NCBI ID   WP_224649202.1    Uniprot ID   -
Organism   Comamonas thiooxydans strain CSUSB4     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 5118434..5130035
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  LCH15_RS23665 (LCH15_23665) - 5118596..5119087 (-) 492 WP_003068209.1 putative toxin-antitoxin system toxin component, PIN family -
  LCH15_RS23670 (LCH15_23670) - 5119084..5120382 (-) 1299 WP_224649198.1 class I SAM-dependent RNA methyltransferase -
  LCH15_RS23675 (LCH15_23675) - 5120562..5120900 (+) 339 WP_224649200.1 tRNA-binding protein -
  LCH15_RS23680 (LCH15_23680) - 5120958..5122190 (+) 1233 WP_034355228.1 DUF711 family protein -
  LCH15_RS23685 (LCH15_23685) - 5122324..5123244 (+) 921 WP_080746150.1 aspartyl/asparaginyl beta-hydroxylase domain-containing protein -
  LCH15_RS23690 (LCH15_23690) rpoN/rpoN1 5123434..5125035 (-) 1602 WP_224649202.1 RNA polymerase factor sigma-54 Machinery gene
  LCH15_RS23695 (LCH15_23695) lptB 5125181..5125963 (-) 783 WP_034355232.1 LPS export ABC transporter ATP-binding protein -
  LCH15_RS23700 (LCH15_23700) lptA 5125960..5126616 (-) 657 WP_003068194.1 lipopolysaccharide transport periplasmic protein LptA -
  LCH15_RS23705 (LCH15_23705) - 5126747..5127397 (-) 651 WP_224649204.1 thiol:disulfide interchange protein DsbA/DsbL -
  LCH15_RS23710 (LCH15_23710) - 5127559..5128263 (-) 705 WP_224649206.1 SPOR domain-containing protein -

Sequence

Protein


Download         Length: 533 a.a.        Molecular weight: 59218.49 Da        Isoelectric Point: 4.6632

>NTDB_id=608634 LCH15_RS23690 WP_224649202.1 5123434..5125035(-) (rpoN/rpoN1) [Comamonas thiooxydans strain CSUSB4]
MKPGLSLRVSQHLSLTPQLQQSIQLLQLSTLELAQEVEQMLVDNPFLERAGDEAETAGDAPVDVANSASEYSTSDGIHAE
RDASQAQQATETVAETSNPETPETLNWEAEGLDGQDGEWGGESSSEWDTPSASSSTRNRDGDDETDAIDLAREHQSLTDF
LHRQALSLHLGAADMAALRFLIESLSDDGYLEDSLQELAQSLAGDDLEEREELEQHFVIALKLLQSLEPVGVGARDLAEC
LQLQLRDLIRTAEDEGTTEAHMNRLLLAQAICSQPMDLLARRDLRKLTSLCGAREEQLREAMALIARLEPRPGRRFVDVE
RHIVVPDVIVRPLRSGSGRVDFSVQLNPEVMPRLRVHDIYASVLRRHKNSDGHAALQQQLQEARWFIKNIQQRFDTILRV
SEAIVERQKNFFVHGELAMRPLVLRDIADTLGLHESTISRVTTAKYMATPQGTFELKYFFGSGLGTETGGSASSTAVRAL
IKQFVDAEDAKKPLSDAKLADMLKEQGIECARRTVAKYREQLKIPTTTLRKAL

Nucleotide


Download         Length: 1602 bp        

>NTDB_id=608634 LCH15_RS23690 WP_224649202.1 5123434..5125035(-) (rpoN/rpoN1) [Comamonas thiooxydans strain CSUSB4]
ATGAAGCCAGGTCTCTCGCTACGCGTTTCGCAGCATTTATCGCTTACGCCGCAGCTGCAGCAATCCATTCAGCTGCTGCA
GCTTTCCACCCTGGAGCTGGCGCAGGAAGTCGAGCAGATGCTGGTCGACAACCCTTTTCTGGAACGTGCGGGCGATGAGG
CCGAAACTGCGGGAGATGCTCCTGTAGATGTAGCTAATAGCGCCAGTGAATACAGTACTTCAGATGGTATTCATGCTGAA
AGAGATGCATCGCAAGCGCAACAAGCTACTGAAACGGTAGCGGAGACATCAAACCCCGAAACCCCTGAAACGCTGAACTG
GGAGGCCGAGGGCCTGGACGGCCAGGACGGGGAATGGGGTGGCGAATCCAGCAGCGAGTGGGATACGCCCTCGGCCAGCA
GCTCCACGCGCAACCGCGATGGCGATGACGAAACCGATGCCATCGATCTGGCGCGCGAGCACCAGAGCCTGACCGACTTT
CTCCATCGTCAGGCGCTGAGCCTGCATCTGGGCGCGGCGGACATGGCGGCGCTGCGCTTTCTCATCGAGTCGCTCAGCGA
CGACGGCTATCTCGAGGATTCCCTGCAGGAGCTGGCGCAGAGCCTGGCCGGCGACGACCTGGAAGAGCGCGAGGAGCTGG
AGCAGCACTTTGTCATTGCTCTGAAGCTGCTGCAAAGCCTGGAGCCCGTGGGCGTGGGCGCGCGTGATCTGGCCGAGTGC
CTGCAGCTGCAGCTGCGCGACCTGATCCGCACCGCCGAGGACGAGGGCACGACCGAGGCGCATATGAACCGGCTGCTGCT
GGCGCAGGCCATCTGCTCCCAACCCATGGACTTGCTGGCGCGGCGCGATCTGCGCAAGCTCACCAGCCTGTGCGGCGCGC
GCGAGGAACAGCTGCGCGAAGCCATGGCCCTGATCGCCAGGCTGGAGCCGCGTCCGGGGCGTCGCTTTGTGGACGTGGAA
CGCCATATCGTGGTGCCCGATGTCATCGTGCGCCCGCTGCGGTCCGGCTCGGGCCGGGTGGACTTCTCCGTGCAGCTCAA
CCCCGAGGTCATGCCGCGTCTGCGCGTGCACGACATCTATGCCAGCGTGCTGCGCCGCCACAAGAACAGCGACGGCCATG
CGGCGCTGCAGCAGCAGTTGCAGGAGGCGCGCTGGTTCATCAAGAACATCCAGCAGCGTTTCGACACCATCTTGCGGGTC
TCCGAAGCCATTGTGGAGCGGCAGAAGAACTTCTTTGTGCATGGCGAACTGGCCATGCGTCCGCTGGTGCTGCGCGATAT
CGCCGACACCCTGGGTCTGCACGAGTCCACCATCAGCCGCGTGACCACGGCCAAGTACATGGCCACGCCCCAGGGCACCT
TCGAGCTCAAGTATTTCTTCGGCTCGGGCCTGGGCACGGAAACCGGCGGCAGTGCTTCCAGCACGGCCGTGCGTGCGCTG
ATCAAGCAGTTTGTCGATGCCGAAGATGCCAAGAAGCCGCTGTCGGACGCCAAGCTGGCCGATATGCTCAAAGAGCAGGG
CATCGAGTGCGCGCGCCGCACCGTCGCCAAATACCGTGAGCAGCTCAAGATACCGACGACCACGCTGCGCAAGGCGCTGT
AG

Domains

Predicted by InterproScan.

Sigma-54 factor, core binding domain (Sigma54_CBD)

(150-360)

Sigma-54, DNA binding domain (Sigma54_DBD)

(375-531)

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

(5-48)


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

50.562

100

0.507