Detailed information    

insolico Bioinformatically predicted

Overview

Name   rpoN/rpoN1   Type   Machinery gene
Locus tag   LK440_RS16060 Genome accession   NZ_CP085973
Coordinates   3331814..3333250 (-) Length   478 a.a.
NCBI ID   WP_076879478.1    Uniprot ID   -
Organism   Bordetella holmesii strain FDAARGOS_1539     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 3326814..3338250
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  LK440_RS16035 (LK440_16035) gabD 3326923..3328365 (+) 1443 WP_005017489.1 NADP-dependent succinate-semialdehyde dehydrogenase -
  LK440_RS16040 (LK440_16040) - 3328533..3329429 (+) 897 WP_005017487.1 transporter -
  LK440_RS16045 (LK440_16045) bfr 3329552..3330028 (-) 477 WP_005017484.1 bacterioferritin -
  LK440_RS16050 (LK440_16050) - 3330342..3331250 (-) 909 WP_005017483.1 DMT family transporter -
  LK440_RS16055 (LK440_16055) - 3331386..3331664 (-) 279 WP_005017481.1 bacterioferritin-associated ferredoxin -
  LK440_RS16060 (LK440_16060) rpoN/rpoN1 3331814..3333250 (-) 1437 WP_076879478.1 RNA polymerase factor sigma-54 Machinery gene
  LK440_RS16065 (LK440_16065) - 3333249..3333971 (+) 723 WP_005017476.1 hypothetical protein -
  LK440_RS16070 (LK440_16070) leuA 3334342..3336051 (+) 1710 WP_005017473.1 2-isopropylmalate synthase -
  LK440_RS16075 (LK440_16075) - 3336115..3337404 (-) 1290 WP_005017470.1 amidase -
  LK440_RS16080 (LK440_16080) - 3337844..3338161 (-) 318 WP_005017468.1 hypothetical protein -

Sequence

Protein


Download         Length: 478 a.a.        Molecular weight: 52510.88 Da        Isoelectric Point: 5.0672

>NTDB_id=621817 LK440_RS16060 WP_076879478.1 3331814..3333250(-) (rpoN/rpoN1) [Bordetella holmesii strain FDAARGOS_1539]
MQNIVPMSRPALELRPGQHLTLTPQLQQSIRLLQLSSLDLEAEISQALAENPLLERDETPAEQIDSDPQREASLDTADSV
TDTEIRFDDMPGSGGVYPDEDSDSPARSDTLREHLLQQLALTRAGVRDAALAALLIDELDDNGYLGSPLSEILQWLPAEL
EVDEDELRAALSLVQSFDPTGIGARDMAECLLLQLRHPDVARLPEAASPAVLGCARELCGQHLALLATGNPARLREMLRV
DEATLRAARALIVRLEPRPGRAWTVPAAEYAVPDVLVRKTRQGWQAVLNSAVMPRLQVNGLYAQMLSNQREAAYAGLNAQ
LQQARWMIRNVEQRFDTILRVAQAIVAHRAEFFTRGPAAMRPLILKDIAGELGLHESTISRATTQKYMLTPFGTMELKRF
FGTGVAMDSGDSASATAVQEHIRQMVADENRAKPLSDSQIMERLAGQGIVIARRTVAKYREALRIAPAAVRKAQAAAR

Nucleotide


Download         Length: 1437 bp        

>NTDB_id=621817 LK440_RS16060 WP_076879478.1 3331814..3333250(-) (rpoN/rpoN1) [Bordetella holmesii strain FDAARGOS_1539]
ATGCAAAATATTGTACCTATGAGTCGTCCCGCCTTAGAACTTCGGCCTGGTCAGCATTTGACCCTGACCCCGCAACTGCA
ACAGTCCATCCGGCTGCTGCAGCTGTCTTCGCTGGATCTTGAGGCCGAAATCTCTCAAGCCCTGGCAGAGAATCCGTTGC
TCGAACGCGACGAAACGCCGGCCGAGCAGATCGACAGCGATCCGCAGCGCGAAGCCAGTCTCGACACTGCCGATTCGGTG
ACGGACACGGAAATCCGGTTTGACGACATGCCGGGTTCGGGCGGCGTATACCCCGATGAGGACAGCGACTCGCCGGCCCG
CAGCGACACTTTGCGCGAGCATCTGTTGCAGCAACTGGCGCTGACCCGCGCCGGTGTGCGCGACGCCGCGCTGGCCGCAT
TGCTCATCGACGAGCTGGACGATAACGGCTATCTCGGTTCGCCGCTGAGTGAAATCCTGCAATGGCTGCCCGCCGAGCTC
GAGGTCGATGAGGATGAGCTGCGTGCGGCGCTGAGCTTGGTGCAGTCCTTCGACCCAACCGGCATCGGTGCGCGCGACAT
GGCCGAGTGCTTGCTGTTGCAATTGCGCCATCCTGACGTCGCGCGGCTGCCCGAAGCCGCATCGCCCGCCGTGCTGGGGT
GCGCGCGCGAACTCTGTGGCCAGCATCTGGCGCTGCTGGCCACCGGTAATCCGGCGCGCCTGCGGGAGATGCTGCGCGTC
GATGAGGCCACGCTGCGCGCCGCGCGGGCGCTGATCGTTCGGCTCGAGCCCCGGCCGGGCCGGGCCTGGACGGTGCCTGC
GGCGGAGTACGCCGTGCCCGATGTGCTGGTGCGCAAAACGCGGCAAGGCTGGCAGGCGGTGCTCAATAGCGCGGTGATGC
CGCGCCTGCAGGTCAACGGCCTGTACGCGCAAATGCTGTCCAATCAGCGCGAGGCTGCCTATGCCGGGCTGAATGCCCAG
CTTCAGCAGGCGCGCTGGATGATCCGCAATGTCGAACAGCGCTTCGACACCATTTTGCGCGTCGCGCAGGCCATCGTCGC
GCACCGGGCCGAGTTCTTCACCCGTGGCCCGGCGGCGATGCGGCCGCTCATTCTCAAAGACATCGCGGGCGAGCTCGGGC
TGCACGAGTCGACGATCTCGCGGGCCACCACGCAGAAGTACATGCTCACTCCGTTTGGGACCATGGAGCTCAAACGATTT
TTCGGCACGGGCGTGGCCATGGACAGCGGTGATTCGGCCTCGGCGACGGCCGTTCAGGAGCACATCCGGCAGATGGTGGC
CGACGAAAACCGTGCCAAGCCGCTTTCGGATAGCCAAATCATGGAGCGCCTGGCCGGTCAGGGCATCGTCATTGCCCGCC
GCACCGTGGCCAAATACCGCGAGGCCTTGCGCATTGCCCCGGCCGCCGTGCGCAAGGCCCAGGCCGCCGCGCGCTGA

Domains

Predicted by InterproScan.

Sigma-54 factor, core binding domain (Sigma54_CBD)

(106-302)

Sigma-54, DNA binding domain (Sigma54_DBD)

(317-472)

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

(12-55)


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

48.419

100

0.513