Detailed information    

insolico Bioinformatically predicted

Overview

Name   rpoN/rpoN1   Type   Machinery gene
Locus tag   CKW12_RS02335 Genome accession   NZ_LT906471
Coordinates   463938..465377 (+) Length   479 a.a.
NCBI ID   WP_023853393.1    Uniprot ID   -
Organism   Bordetella pertussis strain NCTC13666     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 458938..470377
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  CKW12_RS02320 (SAMEA3936801_00459) - 459821..461074 (+) 1254 WP_010929638.1 amidase -
  CKW12_RS02325 (SAMEA3936801_00460) leuA 461165..462865 (-) 1701 WP_010929639.1 2-isopropylmalate synthase -
  CKW12_RS02330 (SAMEA3936801_00461) - 463292..463939 (-) 648 WP_010929640.1 hypothetical protein -
  CKW12_RS02335 (SAMEA3936801_00462) rpoN/rpoN1 463938..465377 (+) 1440 WP_023853393.1 RNA polymerase factor sigma-54 Machinery gene
  CKW12_RS02340 (SAMEA3936801_00463) - 465470..465772 (+) 303 WP_003815905.1 bacterioferritin-associated ferredoxin -
  CKW12_RS02345 (SAMEA3936801_00464) - 465800..466678 (-) 879 WP_010929512.1 LysR substrate-binding domain-containing protein -
  CKW12_RS02350 (SAMEA3936801_00465) - 466786..467714 (+) 929 Protein_460 DMT family transporter -
  CKW12_RS02355 (SAMEA3936801_00467) - 467945..468895 (-) 951 WP_005012067.1 IS481-like element IS481 family transposase -
  CKW12_RS02360 (SAMEA3936801_00468) - 468991..469266 (+) 276 Protein_462 porin -

Sequence

Protein


Download         Length: 479 a.a.        Molecular weight: 52353.58 Da        Isoelectric Point: 4.8131

>NTDB_id=1147838 CKW12_RS02335 WP_023853393.1 463938..465377(+) (rpoN/rpoN1) [Bordetella pertussis strain NCTC13666]
MQNIVPMTRPALELRPGQHLTLTPQLQQSIRLLQLSSLELEAELSQALAENPLLERDEDPAREEQADPEREASVEADEAP
DTELRLDEMPGSGGVLPDDDSDLPQAARPDTLREHLLGQLALTRAAPRDAALCGLLIDELDENGYLDSPLEEILTWLPAE
VQADLDELRAALALLQSFDPAGIGARDMAECLQLQLRQPDPARLPEAADAEVLACARRICAQHLPLLATGNVARVREAVQ
CDEAVVRAAHALIPRLEPRPGRAWTVPAADYAIPDVIVRRTRQGWQAVLNSAVVPRLHVNAVYAQVLGGQRQGGNAGLQA
QLQQARWMIRNVEQRFDTILRVAQAIVAHQQAFFTQGPAAMRPLILKDIAGELDLHESTISRATTQKYMLTPFGTLELKR
FFGAGVSTDGGDATSATAVQAVIRQMVADEDRAKPLSDSQIMQRLADQGIVIARRTVAKYREALRIAPATLRKAHAAGR

Nucleotide


Download         Length: 1440 bp        

>NTDB_id=1147838 CKW12_RS02335 WP_023853393.1 463938..465377(+) (rpoN/rpoN1) [Bordetella pertussis strain NCTC13666]
ATGCAAAATATTGTACCTATGACTCGTCCCGCGCTAGAACTTCGTCCTGGTCAACATTTGACGTTGACCCCTCAACTGCA
ACAGTCGATCCGGCTGTTGCAGCTGTCGTCGCTGGAGCTGGAGGCCGAACTGTCGCAGGCGCTGGCCGAGAATCCGTTGC
TGGAACGCGACGAAGATCCGGCGCGCGAGGAGCAGGCCGACCCCGAGCGCGAGGCCTCGGTCGAGGCCGACGAGGCGCCG
GATACCGAACTGCGCCTGGACGAGATGCCCGGTTCGGGCGGCGTTCTTCCCGACGACGACAGCGACCTGCCGCAGGCGGC
GCGCCCGGATACCCTGCGCGAACACCTGCTGGGGCAGCTGGCGCTGACGCGCGCCGCGCCGCGCGATGCGGCGCTGTGCG
GTCTGCTGATCGACGAACTGGACGAGAACGGCTACCTGGATTCGCCCCTGGAAGAGATCCTGACCTGGCTGCCGGCCGAG
GTGCAGGCCGACCTGGACGAGCTGCGCGCGGCGCTGGCATTGCTGCAGTCGTTCGATCCGGCAGGCATCGGCGCGCGCGA
CATGGCCGAATGCCTGCAGCTGCAGTTGCGCCAGCCCGATCCGGCGCGCCTGCCCGAGGCGGCCGATGCCGAGGTGCTGG
CCTGTGCGCGGCGCATCTGCGCGCAGCATCTGCCCTTGCTGGCCACCGGCAACGTGGCCCGCGTGCGCGAGGCCGTGCAA
TGCGACGAGGCGGTCGTGCGCGCCGCGCATGCGCTGATCCCGCGCCTGGAACCGCGGCCGGGCCGCGCCTGGACGGTGCC
GGCGGCCGATTACGCCATTCCCGACGTGATCGTGCGCCGTACCCGCCAGGGCTGGCAGGCGGTGCTCAACAGCGCCGTCG
TGCCGCGGCTGCATGTCAATGCCGTCTATGCGCAAGTGCTGGGCGGCCAGCGCCAGGGCGGCAACGCCGGCCTGCAGGCG
CAGCTGCAACAGGCGCGCTGGATGATACGCAACGTGGAGCAGCGCTTCGACACCATCCTGCGCGTGGCGCAGGCGATCGT
GGCGCATCAGCAGGCGTTCTTCACCCAGGGGCCGGCGGCCATGCGGCCGCTGATCCTCAAGGACATCGCCGGCGAACTGG
ATCTGCACGAATCGACCATTTCGCGCGCGACGACGCAGAAGTACATGCTCACACCGTTCGGTACGCTGGAGCTCAAGCGC
TTCTTTGGCGCGGGCGTGTCCACCGATGGCGGAGACGCCACCTCGGCCACCGCGGTGCAGGCGGTGATCCGCCAGATGGT
GGCCGACGAGGATCGCGCCAAGCCCTTGTCGGACAGCCAGATCATGCAGCGCCTGGCCGACCAGGGCATCGTCATTGCCC
GCCGCACGGTGGCCAAGTACCGCGAGGCGCTGCGGATTGCGCCAGCGACGCTGCGCAAGGCCCACGCCGCGGGTCGTTAG

Domains

Predicted by InterproScan.

Sigma-54 factor, core binding domain (Sigma54_CBD)

(106-303)

Sigma-54, DNA binding domain (Sigma54_DBD)

(318-473)

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

0.511

Multiple sequence alignment