Detailed information    

insolico Bioinformatically predicted

Overview

Name   rpoN/rpoN1   Type   Machinery gene
Locus tag   U0024_RS25310 Genome accession   NZ_CP139994
Coordinates   5510812..5512413 (-) Length   533 a.a.
NCBI ID   WP_302088696.1    Uniprot ID   -
Organism   Comamonas testosteroni strain HAMBI_0403     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 5505812..5517413
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  U0024_RS25285 (U0024_25290) - 5505986..5506480 (-) 495 WP_304351860.1 PIN domain-containing protein -
  U0024_RS25290 (U0024_25295) - 5506477..5507775 (-) 1299 WP_304351861.1 THUMP domain-containing class I SAM-dependent RNA methyltransferase -
  U0024_RS25295 (U0024_25300) - 5507955..5508293 (+) 339 WP_053283100.1 tRNA-binding protein -
  U0024_RS25300 (U0024_25305) - 5508351..5509583 (+) 1233 WP_304351862.1 DUF711 family protein -
  U0024_RS25305 (U0024_25310) - 5509717..5510637 (+) 921 WP_304351863.1 aspartyl/asparaginyl beta-hydroxylase domain-containing protein -
  U0024_RS25310 (U0024_25315) rpoN/rpoN1 5510812..5512413 (-) 1602 WP_302088696.1 RNA polymerase factor sigma-54 Machinery gene
  U0024_RS25315 (U0024_25320) lptB 5512559..5513341 (-) 783 WP_003060565.1 LPS export ABC transporter ATP-binding protein -
  U0024_RS25320 (U0024_25325) lptA 5513338..5513994 (-) 657 WP_302088695.1 lipopolysaccharide transport periplasmic protein LptA -
  U0024_RS25325 (U0024_25330) - 5514125..5514775 (-) 651 WP_304351864.1 thiol:disulfide interchange protein DsbA/DsbL -
  U0024_RS25330 (U0024_25335) - 5514888..5515592 (-) 705 WP_304351865.1 SPOR domain-containing protein -
  U0024_RS25335 (U0024_25340) argS 5515693..5517402 (-) 1710 WP_304351866.1 arginine--tRNA ligase -

Sequence

Protein


Download         Length: 533 a.a.        Molecular weight: 59020.38 Da        Isoelectric Point: 4.6077

>NTDB_id=912310 U0024_RS25310 WP_302088696.1 5510812..5512413(-) (rpoN/rpoN1) [Comamonas testosteroni strain HAMBI_0403]
MKPGLSLRVSQHLSLTPQLQQSIQLLQLSTLELAQEVEQMLVDNPFLERAGDEAETAGDAPVDVAASAGEYSTSDSIHAE
KESLQAQPATETVAEASTPETPETLNWEADGMDGQDGEWGGESSSEWDAPSASSSTRNRDGDDETDAIDLACEHQSLTDF
LHRQALSLHLGAADMAALRFLIESLSEDGYLEDSLEELAQSLAGDDLEEREELEQHFVIALKLLQSLEPVGVGARDLAEC
LQLQLRDLIRNAEDEGTTEAHMNRLLLAQSICAQPMDLLARRDLRKLTSLCGAREEQLREAMALIARLEPRPGRRFVDVE
RHIVIPDVIVRPVRAGSGRADFSVQLNPDVMPRLRVHDIYASVLRRHKNSDGHAALQQQLQEARWFIKNIQQRFDTILRV
SEAIVERQKNFFVHGELAMRPLVLRDIADTLGLHESTISRVTTAKYMATPQGTFELKYFFGSGLGTETGGSASSTAVRAL
IKQFVDAEDAKKPLSDAKLADMLKEQGIECARRTVAKYREQLKIPTTTLRKAL

Nucleotide


Download         Length: 1602 bp        

>NTDB_id=912310 U0024_RS25310 WP_302088696.1 5510812..5512413(-) (rpoN/rpoN1) [Comamonas testosteroni strain HAMBI_0403]
ATGAAGCCAGGTCTCTCGCTACGCGTTTCGCAGCATTTGTCGCTTACGCCGCAGCTGCAGCAATCCATTCAGCTGCTGCA
GCTCTCCACTCTGGAGCTGGCGCAGGAAGTCGAGCAGATGCTGGTCGACAACCCTTTTCTGGAACGTGCAGGCGATGAGG
CCGAAACCGCAGGAGATGCTCCTGTAGATGTAGCTGCTAGCGCCGGTGAATACAGCACTTCAGATAGTATTCATGCTGAA
AAGGAGTCATTGCAAGCGCAACCAGCTACTGAAACGGTAGCGGAAGCGTCAACCCCCGAAACCCCTGAGACGCTGAACTG
GGAGGCCGACGGCATGGACGGCCAGGACGGGGAGTGGGGCGGTGAATCGAGCAGCGAGTGGGATGCGCCCTCGGCCAGCA
GCTCCACGCGCAACCGCGATGGCGATGACGAAACCGATGCCATCGATCTGGCGTGCGAGCACCAGAGCCTGACCGACTTT
CTCCATCGTCAGGCGCTGAGCCTGCATCTGGGCGCGGCGGACATGGCGGCACTGCGCTTTCTCATCGAGTCGCTCAGCGA
GGACGGCTATCTCGAGGATTCCCTGGAGGAGCTGGCGCAGAGCCTGGCCGGCGACGACCTGGAAGAGCGCGAGGAGCTGG
AGCAGCACTTTGTCATTGCTCTGAAGCTGCTGCAAAGCCTGGAGCCCGTGGGCGTGGGGGCGCGTGATCTGGCCGAGTGC
CTGCAGCTGCAGCTGCGCGACCTGATCCGCAACGCCGAGGACGAGGGCACGACCGAGGCGCATATGAACCGGTTGCTGCT
GGCGCAATCCATCTGCGCGCAGCCCATGGACCTGCTGGCGCGGCGCGATCTGCGCAAGCTCACCAGCCTGTGTGGCGCAC
GCGAGGAGCAACTGCGCGAAGCCATGGCCCTGATCGCCAGGCTGGAGCCGCGTCCGGGGCGCCGCTTTGTCGACGTGGAA
CGCCATATCGTGATACCCGATGTCATCGTGCGTCCGGTGCGGGCAGGCTCGGGCCGGGCGGACTTTTCCGTGCAGCTCAA
CCCCGATGTCATGCCGCGTCTGCGCGTGCACGACATCTATGCCAGCGTGCTGCGTCGCCACAAGAACAGCGACGGTCATG
CGGCGCTGCAGCAGCAGCTGCAGGAGGCGCGCTGGTTCATCAAGAACATCCAGCAGCGCTTCGACACCATCTTGCGTGTT
TCCGAAGCCATCGTGGAGCGGCAGAAGAACTTCTTTGTGCATGGCGAGCTGGCCATGCGGCCGCTGGTGCTGCGCGATAT
CGCCGACACGCTGGGCCTGCACGAGTCCACCATCAGCCGCGTGACCACGGCCAAGTACATGGCCACGCCCCAAGGCACCT
TCGAGCTCAAGTATTTCTTCGGCTCGGGCCTGGGTACGGAAACCGGCGGCAGTGCCTCCAGCACGGCCGTGCGTGCGCTG
ATCAAGCAGTTTGTCGATGCCGAAGATGCCAAAAAGCCGCTATCGGATGCAAAACTAGCCGACATGCTCAAGGAGCAGGG
CATCGAGTGCGCGCGCCGCACCGTCGCCAAATACCGCGAGCAGCTCAAGATACCGACGACCACGCTGCGCAAGGCGCTGT
AG

Domains

Predicted by InterproScan.

Sigma-54, DNA binding domain (Sigma54_DBD)

(375-531)

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

(5-48)

Sigma-54 factor, core binding domain (Sigma54_CBD)

(151-360)


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

51.124

100

0.512