Detailed information    

insolico Bioinformatically predicted

Overview

Name   rpoN/rpoN1   Type   Machinery gene
Locus tag   ACAM58_RS02965 Genome accession   NZ_AP028661
Coordinates   638354..639946 (+) Length   530 a.a.
NCBI ID   WP_012745629.1    Uniprot ID   -
Organism   Variovorax sp. V116     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 633354..644946
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  ACAM58_RS02940 (GmRootV116_05920) argS 633406..635091 (+) 1686 WP_369664102.1 arginine--tRNA ligase -
  ACAM58_RS02945 (GmRootV116_05930) - 635099..635839 (+) 741 WP_369664103.1 SPOR domain-containing protein -
  ACAM58_RS02950 (GmRootV116_05940) - 635985..636632 (+) 648 WP_012745626.1 thiol:disulfide interchange protein DsbA/DsbL -
  ACAM58_RS02955 (GmRootV116_05950) lptA 636826..637545 (+) 720 WP_018904014.1 lipopolysaccharide transport periplasmic protein LptA -
  ACAM58_RS02960 (GmRootV116_05960) lptB 637542..638336 (+) 795 WP_018904015.1 LPS export ABC transporter ATP-binding protein -
  ACAM58_RS02965 (GmRootV116_05970) rpoN/rpoN1 638354..639946 (+) 1593 WP_012745629.1 RNA polymerase factor sigma-54 Machinery gene
  ACAM58_RS02970 (GmRootV116_05980) - 639957..641561 (+) 1605 WP_369664104.1 phospholipase D family protein -
  ACAM58_RS02975 (GmRootV116_05990) - 641572..642219 (-) 648 WP_369664105.1 LysE family translocator -
  ACAM58_RS02980 (GmRootV116_06000) - 642241..642876 (-) 636 WP_012745632.1 YceI family protein -
  ACAM58_RS02985 (GmRootV116_06010) - 642917..643498 (-) 582 WP_369664106.1 YceI family protein -
  ACAM58_RS02990 (GmRootV116_06020) - 643495..644124 (-) 630 WP_307592924.1 cytochrome b -

Sequence

Protein


Download         Length: 530 a.a.        Molecular weight: 58512.82 Da        Isoelectric Point: 4.7249

>NTDB_id=106733 ACAM58_RS02965 WP_012745629.1 638354..639946(+) (rpoN/rpoN1) [Variovorax sp. V116]
MKQGLSLRVSQHLALTPQLQQSIRLLQLSTLELSQEVEQMLDENPFLERTAEEAAREEFGLDAIDTPVPRDEAGEAAEGE
FSSAPASSTTSTSSETASTAESEVPAADATEREPDWEGDGTVDMAPDDSEWGSDAPARQNNLGDDERADATELARSQESL
QSFLHRQALSLRLNENDSAALRFLIESLNDDGYLEDSLPALASGLAGDDNDQFDELVHHFQVALGLLQSLEPAGVGARDL
GECLCIQLRALASESETEEQALVRKTAIAICKQPMELLARRDFKRLATLTRTNEELVRSALQVISRLEPKPGRRFVDVER
NIVIPDVIVTKIGRGTNAKFRVMLNPEVMPRLRVHDIYAGALKSHKGEGSQALSQRLQEARWFIKNIQQRFDTILRVSNA
IVERQKSFFVHGELAMRPLVLREIADELGLHESTISRVTTAKYMSTPFGTVELKYFFGSALGTETGGNASSTAVRALIKQ
FVSSESIKKPLSDSQISEMLKEQGIECARRTVAKYREALRIAPANLRKAL

Nucleotide


Download         Length: 1593 bp        

>NTDB_id=106733 ACAM58_RS02965 WP_012745629.1 638354..639946(+) (rpoN/rpoN1) [Variovorax sp. V116]
ATGAAGCAAGGGCTGTCCCTTCGCGTTTCGCAGCACCTGGCGCTCACGCCCCAGCTGCAGCAGTCGATCCGGCTGCTGCA
GCTGTCCACGCTCGAACTGAGCCAGGAAGTGGAGCAGATGCTGGACGAGAACCCGTTCCTCGAACGCACCGCGGAAGAAG
CCGCGCGCGAGGAATTCGGGCTCGACGCCATCGACACGCCGGTGCCGCGCGACGAGGCCGGTGAAGCCGCCGAGGGCGAA
TTCAGCTCGGCCCCGGCCAGCAGCACGACCAGCACTTCGAGCGAAACCGCCTCCACGGCCGAGTCCGAGGTTCCTGCCGC
CGACGCCACCGAGCGCGAGCCCGACTGGGAAGGCGACGGCACCGTCGACATGGCGCCGGACGACAGCGAATGGGGCAGCG
ATGCCCCCGCGCGCCAGAACAACCTGGGCGACGACGAGCGTGCCGACGCCACTGAGCTCGCGCGCAGCCAGGAGTCGCTG
CAGTCCTTCCTGCACCGGCAGGCGCTGAGCCTGCGGCTGAACGAGAACGACAGCGCCGCGCTGCGCTTCCTGATCGAATC
GCTCAACGACGACGGCTACCTGGAGGATTCGCTGCCGGCGCTGGCCTCGGGCCTCGCGGGCGACGACAACGACCAGTTCG
ACGAGCTGGTGCACCACTTCCAGGTGGCGCTCGGCCTGCTGCAGAGCCTGGAGCCGGCCGGCGTCGGCGCGCGCGACCTG
GGCGAATGCCTTTGCATCCAGCTGCGCGCGCTCGCCAGCGAAAGCGAGACCGAGGAACAGGCGCTGGTGCGCAAGACCGC
CATCGCGATCTGCAAGCAGCCGATGGAGCTGCTCGCGCGGCGCGACTTCAAGCGCCTGGCCACGCTCACGCGCACCAACG
AAGAGCTGGTGCGCTCGGCGCTGCAGGTCATCTCGCGCCTGGAGCCCAAGCCGGGCCGCCGTTTTGTCGATGTCGAGCGC
AACATCGTGATTCCCGACGTGATCGTCACCAAGATCGGCCGCGGCACCAATGCCAAGTTCCGCGTCATGCTCAACCCCGA
GGTGATGCCGCGGCTGCGCGTGCACGACATCTATGCCGGCGCGCTCAAGTCGCACAAGGGCGAGGGCAGCCAGGCGCTGT
CGCAGCGGCTGCAGGAGGCACGCTGGTTCATCAAGAACATCCAGCAGCGCTTCGACACCATCCTGCGCGTGAGCAACGCC
ATCGTCGAGCGGCAGAAGAGCTTCTTCGTGCACGGCGAGCTCGCGATGCGACCACTGGTGCTGCGCGAGATTGCCGACGA
ACTCGGCCTGCACGAATCGACCATCTCGCGCGTGACCACGGCCAAGTACATGTCCACGCCTTTCGGCACGGTCGAGCTCA
AGTACTTCTTCGGCTCGGCGCTCGGCACCGAGACCGGCGGCAATGCATCGAGCACCGCGGTGCGCGCGCTGATCAAGCAG
TTCGTGAGCTCCGAGAGCATCAAGAAGCCGCTGTCCGACAGCCAGATCTCCGAGATGCTCAAGGAGCAGGGCATCGAGTG
CGCGCGCCGCACCGTGGCCAAGTACCGCGAGGCCCTGCGCATCGCGCCCGCCAACCTCCGCAAGGCGCTGTAG

Domains

Predicted by InterproScan.

Sigma-54, DNA binding domain (Sigma54_DBD)

(372-528)

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

(5-48)

Sigma-54 factor, core binding domain (Sigma54_CBD)

(151-358)


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

51.789

100

0.519

Multiple sequence alignment