Detailed information    

insolico Bioinformatically predicted

Overview

Name   rpoN/rpoN1   Type   Machinery gene
Locus tag   ICV01_RS08390 Genome accession   NZ_CP061294
Coordinates   1661720..1663093 (+) Length   457 a.a.
NCBI ID   WP_215287418.1    Uniprot ID   -
Organism   Polynucleobacter sp. MWH-Spelu-300-X4     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 1656720..1668093
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  ICV01_RS08365 (ICV01_08355) - 1658195..1659196 (+) 1002 WP_215287411.1 SIS domain-containing protein -
  ICV01_RS08370 (ICV01_08360) - 1659196..1659765 (+) 570 WP_215287413.1 HAD family hydrolase -
  ICV01_RS08375 (ICV01_08365) lptC 1659799..1660377 (+) 579 WP_215287415.1 LPS export ABC transporter periplasmic protein LptC -
  ICV01_RS08380 (ICV01_08370) lptA 1660378..1660917 (+) 540 WP_215287416.1 lipopolysaccharide transport periplasmic protein LptA -
  ICV01_RS08385 (ICV01_08375) lptB 1660914..1661654 (+) 741 WP_215287417.1 LPS export ABC transporter ATP-binding protein -
  ICV01_RS08390 (ICV01_08380) rpoN/rpoN1 1661720..1663093 (+) 1374 WP_215287418.1 RNA polymerase factor sigma-54 Machinery gene
  ICV01_RS08395 (ICV01_08385) hpf 1663108..1663434 (+) 327 WP_215287419.1 ribosome hibernation-promoting factor, HPF/YfiA family -
  ICV01_RS08400 (ICV01_08390) - 1663473..1663928 (+) 456 WP_215287420.1 PTS sugar transporter subunit IIA -
  ICV01_RS08405 (ICV01_08395) hprK 1663930..1664913 (+) 984 WP_215287421.1 HPr(Ser) kinase/phosphatase -
  ICV01_RS08410 (ICV01_08400) rapZ 1664916..1665806 (+) 891 WP_215287423.1 RNase adapter RapZ -
  ICV01_RS08415 (ICV01_08405) mutY 1665766..1666830 (-) 1065 WP_215287424.1 A/G-specific adenine glycosylase -
  ICV01_RS08420 (ICV01_08410) mutM 1666815..1667651 (-) 837 WP_215287426.1 bifunctional DNA-formamidopyrimidine glycosylase/DNA-(apurinic or apyrimidinic site) lyase -

Sequence

Protein


Download         Length: 457 a.a.        Molecular weight: 51374.75 Da        Isoelectric Point: 6.3028

>NTDB_id=481641 ICV01_RS08390 WP_215287418.1 1661720..1663093(+) (rpoN/rpoN1) [Polynucleobacter sp. MWH-Spelu-300-X4]
MKASLNLRFSQNLALTPQLQQSIKLLQLSALELEQELIQAAETNPLIEYEPPMDRAATEPIIQLSHRSTNSIKSNSDWDE
DDDRFTRLSAPQSLLDHLIDQIRVMRLSNVEKSLVGLLAGNLDEKGLLPITLDELAEEISDEIDLEDGSPKEQLTRALAR
LQHLEPPGVGARDLGECLKLQLEALPEKDKLEKVWAYAHKICSDHIDLLASRDWVRLKKILKASDAELNAAVVAIKNLKH
NPAAEFEQGTETTLIPDVIVKKTTHGWQVIPNPDAQPKISIHEEYAKVIKNNKNREGGDNLAQKLQEARWLVKNVLQRSE
TILKVAKAIVDRQQNFFNHGEIAMRPLVLREIADTLNLHESTISRVTTQKYMATPLGTYEFKYFFGSQVSTDTGGSVSST
AIRAVIKQLVDEEDANKPLSDTQIVDLLATKGFVIARRTIAKYRESLRIPAVHLRRK

Nucleotide


Download         Length: 1374 bp        

>NTDB_id=481641 ICV01_RS08390 WP_215287418.1 1661720..1663093(+) (rpoN/rpoN1) [Polynucleobacter sp. MWH-Spelu-300-X4]
ATGAAAGCAAGTCTCAACCTAAGGTTTTCACAGAACCTAGCTCTTACACCACAACTACAGCAGTCGATTAAGCTTCTGCA
GCTATCAGCCCTTGAGCTAGAGCAAGAACTCATTCAAGCCGCAGAAACAAACCCCCTCATTGAATATGAGCCCCCAATGG
ATCGAGCTGCTACCGAACCAATCATTCAGCTGTCTCACCGCAGCACCAATTCAATCAAGAGTAATTCGGATTGGGATGAA
GATGACGACCGATTTACGAGGTTATCAGCGCCACAAAGCCTCCTAGATCATCTCATCGACCAAATTAGGGTCATGCGTTT
ATCCAACGTAGAAAAGAGCTTGGTAGGCCTTTTAGCGGGTAACTTGGATGAGAAAGGCCTCCTACCAATAACGCTAGATG
AATTGGCCGAAGAAATCTCTGATGAGATTGATCTAGAAGATGGCTCTCCAAAAGAACAATTAACTAGAGCGCTTGCTAGA
CTGCAACACCTAGAGCCTCCTGGCGTTGGAGCGAGAGACCTAGGCGAATGCCTCAAGCTCCAACTAGAGGCCCTACCTGA
AAAAGATAAATTAGAGAAAGTTTGGGCGTATGCCCACAAGATATGTAGTGACCATATTGATTTATTAGCTAGCAGGGACT
GGGTTCGACTTAAAAAAATACTAAAAGCTTCAGATGCTGAGCTCAATGCAGCAGTGGTAGCCATTAAAAATTTAAAACAT
AACCCCGCTGCAGAGTTTGAACAAGGCACAGAGACCACCCTCATCCCCGATGTGATCGTCAAAAAAACTACTCACGGATG
GCAAGTCATACCCAACCCCGATGCACAACCCAAAATTAGCATCCATGAGGAGTATGCAAAGGTTATTAAAAATAATAAAA
ATAGAGAAGGTGGAGATAACCTAGCCCAAAAACTACAAGAGGCTAGATGGCTTGTTAAAAATGTGCTACAAAGAAGCGAA
ACCATATTAAAAGTAGCTAAAGCTATCGTGGATAGACAACAAAATTTCTTCAATCATGGTGAAATCGCCATGAGGCCATT
GGTTTTACGAGAAATTGCAGATACCTTGAATCTGCATGAATCCACTATTTCAAGAGTCACCACTCAAAAATATATGGCCA
CACCCTTAGGTACTTATGAATTTAAGTACTTCTTTGGCAGCCAAGTCAGTACAGATACTGGCGGATCAGTCTCATCAACA
GCCATCAGAGCGGTCATAAAACAATTAGTTGACGAAGAAGATGCCAACAAACCTCTCTCAGACACACAAATCGTAGATTT
ACTTGCGACCAAAGGGTTTGTAATTGCCAGAAGAACAATTGCTAAATACAGGGAATCTCTACGCATCCCTGCAGTTCATT
TGCGTAGAAAATAA

Domains

Predicted by InterproScan.

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

(4-48)

Sigma-54, DNA binding domain (Sigma54_DBD)

(301-457)

Sigma-54 factor, core binding domain (Sigma54_CBD)

(88-285)


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

47.059

100

0.525