Detailed information    

insolico Bioinformatically predicted

Overview

Name   rpoN/rpoN1   Type   Machinery gene
Locus tag   LSQ66_RS24100 Genome accession   NZ_CP088952
Coordinates   5254173..5255642 (+) Length   489 a.a.
NCBI ID   WP_231767684.1    Uniprot ID   -
Organism   Massilia endophytica strain DM-R-R2A-13     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 5249173..5260642
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  LSQ66_RS24075 (LSQ66_24075) - 5250656..5251678 (+) 1023 WP_269449118.1 SIS domain-containing protein -
  LSQ66_RS24080 (LSQ66_24080) - 5251678..5252217 (+) 540 WP_231767680.1 HAD family hydrolase -
  LSQ66_RS24085 (LSQ66_24085) lptC 5252226..5252819 (+) 594 WP_231767681.1 LPS export ABC transporter periplasmic protein LptC -
  LSQ66_RS24090 (LSQ66_24090) lptA 5252838..5253410 (+) 573 WP_231767682.1 lipopolysaccharide transport periplasmic protein LptA -
  LSQ66_RS24095 (LSQ66_24095) lptB 5253413..5254168 (+) 756 WP_231767683.1 LPS export ABC transporter ATP-binding protein -
  LSQ66_RS24100 (LSQ66_24100) rpoN/rpoN1 5254173..5255642 (+) 1470 WP_231767684.1 RNA polymerase factor sigma-54 Machinery gene
  LSQ66_RS24105 (LSQ66_24105) hpf 5255696..5256055 (+) 360 WP_231767685.1 ribosome hibernation-promoting factor, HPF/YfiA family -
  LSQ66_RS24110 (LSQ66_24110) - 5256107..5257006 (-) 900 WP_231767686.1 LysR family transcriptional regulator -
  LSQ66_RS24115 (LSQ66_24115) - 5257092..5257868 (+) 777 WP_231767687.1 NAD(P)H-dependent oxidoreductase -
  LSQ66_RS24120 (LSQ66_24120) - 5257919..5259004 (+) 1086 WP_231767688.1 enoyl-CoA hydratase/isomerase family protein -
  LSQ66_RS24125 (LSQ66_24125) - 5259001..5259462 (+) 462 WP_231767689.1 Lrp/AsnC family transcriptional regulator -
  LSQ66_RS24130 (LSQ66_24130) - 5259547..5259921 (+) 375 WP_231767690.1 VOC family protein -

Sequence

Protein


Download         Length: 489 a.a.        Molecular weight: 54347.80 Da        Isoelectric Point: 5.1927

>NTDB_id=634116 LSQ66_RS24100 WP_231767684.1 5254173..5255642(+) (rpoN/rpoN1) [Massilia endophytica strain DM-R-R2A-13]
MKQSLQLRTSQHLALTPQLQQSIRLLQLSTLELHQELEQLLTENPLLERLDDPLDRSVRLLADGAIGQSAPAATPAEGPP
GENGPQAEAAPAEAEPYEGDSVAEGDSDWSGSGSGKAPDDEDARPQLEASHHSLRDHLLEQMRVTVQEPRDRALMELIID
ALDDNGYLEESLEEIHARIPEEADVELEELQTALTLLQSFDPVGVGARNASECLAIQIRRMPHIPLVTRRMALCIVEKHL
TWFAQRDFNKLKKALDCDEEDLREAQAVIRRCNPHPGAAFAQDASDYVVPDVIVKKGRNGWVVTLNNDVMPRLRVNALYA
SLLKQGKGETQMNAQLQEAKWLIKNMRQRFDTILRVAQAIVERQKNFFSHGAVAMRPLVLREIADTLGLHESTISRVTTQ
KYMLTPHGMFELKYFFGSHVATEAGGEASSTAIRALIVQFTGAEDPKNPLSDSKIADMLGEQGMVIARRTVAKYREALKI
PPVSLRKSL

Nucleotide


Download         Length: 1470 bp        

>NTDB_id=634116 LSQ66_RS24100 WP_231767684.1 5254173..5255642(+) (rpoN/rpoN1) [Massilia endophytica strain DM-R-R2A-13]
ATGAAACAATCCCTGCAACTGCGAACGTCGCAGCATCTTGCGTTGACGCCGCAATTGCAGCAGTCCATCCGGCTGCTGCA
ATTGTCCACGCTTGAGCTGCATCAGGAGCTGGAGCAGCTGCTAACCGAAAACCCCCTGCTCGAACGTCTGGACGACCCGC
TGGACCGCAGCGTGCGCCTTCTCGCCGACGGCGCCATCGGCCAGAGCGCGCCGGCGGCCACGCCAGCCGAAGGACCGCCC
GGCGAGAACGGGCCGCAGGCCGAGGCCGCGCCTGCGGAAGCCGAACCCTACGAAGGCGACAGCGTGGCCGAGGGCGACAG
CGACTGGTCGGGTTCGGGCAGCGGCAAGGCCCCGGACGACGAGGACGCGCGCCCGCAGCTGGAAGCGAGCCACCACAGCC
TGCGCGACCATCTGCTGGAGCAGATGCGCGTCACCGTGCAGGAGCCGCGCGACCGGGCGCTGATGGAACTCATCATCGAT
GCGCTGGACGACAACGGCTATCTTGAAGAAAGCCTCGAGGAAATCCACGCGCGCATTCCGGAAGAGGCGGATGTGGAGCT
GGAGGAGCTGCAGACGGCGCTCACGCTGCTGCAAAGCTTCGACCCCGTGGGCGTGGGCGCGCGCAACGCGTCCGAATGCC
TCGCCATCCAGATCAGGCGCATGCCGCACATTCCACTGGTCACGCGCCGCATGGCCTTGTGCATCGTGGAAAAACACCTC
ACCTGGTTCGCCCAGCGCGACTTCAACAAGCTGAAGAAAGCGCTCGATTGCGACGAGGAAGATCTGCGCGAAGCCCAGGC
CGTGATCCGCCGCTGCAACCCGCATCCGGGCGCCGCCTTCGCGCAGGATGCGTCAGACTATGTCGTGCCGGACGTGATCG
TGAAGAAGGGCCGCAACGGCTGGGTCGTCACGCTGAACAACGACGTGATGCCGCGCCTGCGCGTCAATGCGCTGTATGCC
AGTTTGCTCAAGCAGGGCAAGGGCGAAACGCAGATGAATGCGCAGCTGCAGGAGGCCAAGTGGCTCATCAAGAACATGCG
CCAGCGGTTTGACACAATTTTGCGCGTTGCACAAGCAATCGTGGAGCGGCAGAAGAACTTTTTCTCGCACGGCGCCGTCG
CCATGAGACCCCTTGTGTTGCGCGAAATTGCTGATACACTGGGTTTACACGAGAGTACTATTTCTCGCGTAACAACTCAG
AAATACATGCTCACCCCACATGGGATGTTTGAGTTGAAATATTTCTTTGGTAGCCACGTCGCGACTGAAGCTGGGGGTGA
AGCTTCCTCGACCGCGATCCGTGCGCTGATTGTGCAATTCACAGGAGCAGAAGACCCGAAAAATCCCTTATCCGACAGTA
AGATTGCGGACATGCTAGGAGAACAGGGCATGGTGATTGCGCGACGTACTGTTGCCAAGTATCGCGAAGCCTTGAAGATC
CCTCCCGTCAGCCTCCGCAAGTCCTTGTAG

Domains

Predicted by InterproScan.

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

(4-48)

Sigma-54 factor, core binding domain (Sigma54_CBD)

(127-319)

Sigma-54, DNA binding domain (Sigma54_DBD)

(331-487)


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

60.198

100

0.622