Detailed information    

insolico Bioinformatically predicted

Overview

Name   rpoN/rpoN1   Type   Machinery gene
Locus tag   C9I28_RS25965 Genome accession   NZ_CP028324
Coordinates   5963319..5964788 (-) Length   489 a.a.
NCBI ID   WP_107144029.1    Uniprot ID   A0A2R4CGF1
Organism   Pseudoduganella armeniaca strain ZMN-3     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 5958319..5969788
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  C9I28_RS25945 (C9I28_25940) - 5958487..5959308 (-) 822 WP_107144025.1 hypothetical protein -
  C9I28_RS25950 (C9I28_25945) - 5959340..5960344 (-) 1005 WP_107144026.1 aromatic ring-hydroxylating dioxygenase subunit alpha -
  C9I28_RS25955 (C9I28_25950) - 5960425..5961504 (-) 1080 WP_107144027.1 fatty acid desaturase -
  C9I28_RS25960 (C9I28_25955) hpf 5962884..5963234 (-) 351 WP_107144028.1 ribosome hibernation-promoting factor, HPF/YfiA family -
  C9I28_RS25965 (C9I28_25960) rpoN/rpoN1 5963319..5964788 (-) 1470 WP_107144029.1 RNA polymerase factor sigma-54 Machinery gene
  C9I28_RS25970 (C9I28_25965) lptB 5964794..5965570 (-) 777 WP_229415829.1 LPS export ABC transporter ATP-binding protein -
  C9I28_RS25975 (C9I28_25970) lptA 5965572..5966132 (-) 561 WP_107144030.1 lipopolysaccharide transport periplasmic protein LptA -
  C9I28_RS25980 (C9I28_25975) lptC 5966142..5966744 (-) 603 WP_107144031.1 LPS export ABC transporter periplasmic protein LptC -
  C9I28_RS25985 (C9I28_25980) - 5966757..5967296 (-) 540 WP_107144032.1 HAD family hydrolase -
  C9I28_RS25990 (C9I28_25985) - 5967296..5968318 (-) 1023 WP_371861530.1 SIS domain-containing protein -

Sequence

Protein


Download         Length: 489 a.a.        Molecular weight: 54358.83 Da        Isoelectric Point: 4.9814

>NTDB_id=284121 C9I28_RS25965 WP_107144029.1 5963319..5964788(-) (rpoN/rpoN1) [Pseudoduganella armeniaca strain ZMN-3]
MKQSLQLRTSQHLALTPQLQQSIRLLQLSTLELHQELEQLLTDNPLLERLDDPLDRSLRLLADGAIGQQGAPEAPAEGPP
QQADAPAPAEAEPYEGNDSDGGPEGDSDWSDAGRSKGPDDDDARPQLEASQHTLREHLMEQMRVTVQEPRDRALVELIID
ALDENGYLEESLEEIHGRLPEELEVEMEELRTALALLQSFDPIGVGARSASECLALQIRKMPGVPLVTRRMALCIVEKHL
AWFAQRDFNKLKKALDCDDEDLREAQAVIRQCNPHPGAAFASDVSDYVVPDVIVKKGRNGWVVTLNNDVMPRLRVNALYA
SLLKQGKGESQMSAQLQEAKWLIKNMRQRFDTILRVAQAIVERQKNFFSHGAVAMRPLVLREIADTLGLHESTISRVTTQ
KYMLTPHGMFELKYFFGSHVATEAGGEASSTAIRALIVQFTGAEDPKNPLSDSKIADMLGEQGMVIARRTVAKYREALKI
PPVSLRKSL

Nucleotide


Download         Length: 1470 bp        

>NTDB_id=284121 C9I28_RS25965 WP_107144029.1 5963319..5964788(-) (rpoN/rpoN1) [Pseudoduganella armeniaca strain ZMN-3]
ATGAAACAGTCTCTGCAACTGCGAACGTCGCAGCACCTCGCGCTGACCCCGCAGCTGCAGCAGTCGATCCGGCTGCTGCA
GCTCTCCACGCTGGAGCTGCATCAGGAACTGGAACAGCTGCTGACCGATAACCCGCTGCTGGAACGCCTCGACGATCCGC
TCGACCGTTCGCTGCGGCTGCTGGCCGATGGCGCCATCGGCCAGCAGGGCGCGCCGGAGGCGCCAGCGGAAGGACCGCCG
CAACAGGCCGACGCGCCGGCCCCGGCCGAAGCGGAACCGTACGAGGGCAACGACAGCGATGGCGGTCCGGAAGGCGACAG
CGACTGGAGCGACGCGGGTCGCAGCAAGGGCCCGGACGACGACGACGCCCGTCCCCAGCTGGAAGCGAGCCAGCACACGC
TGCGCGAGCACCTGATGGAGCAGATGCGCGTGACGGTGCAGGAGCCGCGCGACCGCGCGCTGGTCGAGCTCATCATCGAT
GCGCTGGACGAGAACGGCTACCTGGAGGAAAGCCTGGAAGAGATCCATGGCCGCCTGCCGGAAGAGCTGGAAGTGGAAAT
GGAAGAGCTGCGCACGGCGCTGGCGCTGCTGCAGAGCTTTGACCCGATCGGCGTGGGCGCGCGCAGCGCGTCCGAATGCC
TGGCGCTGCAGATCCGCAAGATGCCGGGCGTGCCGCTGGTCACGCGCCGCATGGCCCTGTGCATCGTCGAGAAGCACCTG
GCCTGGTTTGCCCAGCGCGACTTCAACAAGCTGAAGAAGGCGCTCGACTGCGATGACGAAGACCTGCGCGAGGCGCAGGC
CGTGATTCGCCAGTGCAATCCGCATCCGGGCGCCGCGTTCGCGTCCGACGTGTCAGACTACGTCGTACCGGATGTGATTG
TGAAGAAGGGCCGCAATGGCTGGGTCGTCACGCTGAACAACGACGTGATGCCGCGCCTGCGGGTGAACGCGCTGTATGCC
AGCTTGCTGAAGCAAGGCAAGGGCGAATCGCAGATGAGCGCACAGCTGCAGGAAGCGAAGTGGCTGATCAAGAACATGCG
CCAGCGCTTCGACACGATTCTCCGTGTCGCCCAGGCTATCGTCGAGCGCCAGAAGAACTTTTTCTCGCACGGCGCCGTGG
CGATGAGACCCCTTGTGTTGCGTGAAATAGCTGATACACTGGGGCTACACGAGAGCACGATCTCTCGGGTGACAACTCAA
AAATATATGCTGACCCCGCATGGCATGTTTGAGTTGAAGTACTTTTTTGGCAGCCACGTCGCAACCGAAGCTGGGGGAGA
AGCTTCCTCGACTGCGATCCGTGCGCTGATCGTGCAATTCACAGGAGCCGAAGACCCGAAGAACCCTTTATCCGACAGTA
AGATTGCGGACATGCTGGGAGAACAGGGCATGGTGATTGCGCGACGAACTGTTGCCAAGTATCGCGAAGCCTTGAAAATC
CCTCCCGTCAGCCTCCGCAAGTCCTTGTAG

Domains

Predicted by InterProScan.

Sigma-54, DNA binding domain (Sigma54_DBD)

(331-487)

Sigma-54 factor, core binding domain (Sigma54_CBD)

(127-319)

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

(4-48)


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

61.584

100

0.636

Multiple sequence alignment