Detailed information    

insolico Bioinformatically predicted

Overview

Name   rpoN/rpoN1   Type   Machinery gene
Locus tag   WMB06_RS01080 Genome accession   NZ_CP151275
Coordinates   224869..226326 (+) Length   485 a.a.
NCBI ID   WP_341677223.1    Uniprot ID   -
Organism   Niveibacterium sp. SC-1     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Related MGE

Note: This gene co-localizes with putative mobile genetic elements (MGEs) in the genome predicted by VRprofile2, as detailed below.

Gene-MGE association summary

MGE type MGE coordinates Gene coordinates Relative position Distance (bp)
Genomic island 223686..236139 224869..226326 within 0


Gene organization within MGE regions


Location: 223686..236139
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  WMB06_RS01070 (WMB06_01070) recX 223686..224135 (+) 450 WP_341677221.1 recombination regulator RecX -
  WMB06_RS01075 (WMB06_01075) lptB 224122..224844 (+) 723 WP_341677222.1 LPS export ABC transporter ATP-binding protein -
  WMB06_RS01080 (WMB06_01080) rpoN/rpoN1 224869..226326 (+) 1458 WP_341677223.1 RNA polymerase factor sigma-54 Machinery gene
  WMB06_RS01085 (WMB06_01085) raiA 226338..226661 (+) 324 WP_341677224.1 ribosome-associated translation inhibitor RaiA -
  WMB06_RS01090 (WMB06_01090) ptsN 226766..227233 (+) 468 WP_341677225.1 PTS IIA-like nitrogen regulatory protein PtsN -
  WMB06_RS01095 (WMB06_01095) hprK 227220..228173 (+) 954 WP_341677226.1 HPr(Ser) kinase/phosphatase -
  WMB06_RS01100 (WMB06_01100) - 228426..228878 (+) 453 WP_341677227.1 hypothetical protein -
  WMB06_RS01105 (WMB06_01105) cutA 228959..229303 (+) 345 WP_341677228.1 divalent-cation tolerance protein CutA -
  WMB06_RS01110 (WMB06_01110) dsbD 229313..231139 (+) 1827 WP_341677229.1 protein-disulfide reductase DsbD -
  WMB06_RS01115 (WMB06_01115) trmB 231489..232211 (-) 723 WP_341677230.1 tRNA (guanosine(46)-N7)-methyltransferase TrmB -
  WMB06_RS01120 (WMB06_01120) - 232216..233001 (-) 786 WP_341677231.1 thiazole synthase -
  WMB06_RS01125 (WMB06_01125) thiS 233053..233256 (-) 204 WP_341677232.1 sulfur carrier protein ThiS -
  WMB06_RS01135 (WMB06_01135) ltrA 234469..236139 (+) 1671 WP_341677233.1 group II intron reverse transcriptase/maturase -

Sequence

Protein


Download         Length: 485 a.a.        Molecular weight: 54016.74 Da        Isoelectric Point: 4.7533

>NTDB_id=976041 WMB06_RS01080 WP_341677223.1 224869..226326(+) (rpoN/rpoN1) [Niveibacterium sp. SC-1]
MKPSLQLRVSQQLALTPQLQQSIKLLQLSTLELNTEIERMLLDNPLLERDDVDNDPDSWGHTAEATTTPGDGAGSAEEAP
AADNKESERDSFEEGQMDWSSEGGSGSGSSSNRDDDDDTDFQEFRAAQTSLRDHLDSQVSLIPLSDRDRELVRFMIEALD
DDGYLSQPPEELLELLPAEAEVELEELQIALAHVQNLDPPGVGARSPGECLSLQLRTLPQNPVRDLAIAICNQHLELLAS
RDFVRLKRLLGCGDDSLREAHQLVCGLDPRPGSRFAALDARYIVPDVVVRKYRGHWNASLNGDAVPRLRINQLYAGILQQ
HRGSSASLSSQLQEARWMIKNVQQRFDTILRVSQAIVDRQRQFFDYGDVAMRPLTLREIAEQLDLHESTISRVTTQKYMA
TPRGILELKYFFGSHVSTDSGGACSATAIRALIRQLVAAEDRKKPLSDARIAELLGQQGIVVARRTIAKYREALNIPPVS
QRKMI

Nucleotide


Download         Length: 1458 bp        

>NTDB_id=976041 WMB06_RS01080 WP_341677223.1 224869..226326(+) (rpoN/rpoN1) [Niveibacterium sp. SC-1]
ATGAAGCCCTCCCTCCAACTCCGCGTTTCGCAACAACTGGCGCTGACCCCGCAGCTGCAGCAATCGATCAAGCTTCTGCA
GTTGTCGACCCTCGAGCTCAACACCGAGATCGAGCGGATGCTGCTGGACAACCCGCTGCTCGAACGCGACGACGTCGACA
ACGATCCGGACAGCTGGGGCCACACCGCGGAGGCGACGACCACCCCGGGTGATGGCGCGGGCTCTGCGGAGGAGGCGCCT
GCGGCCGACAACAAGGAATCCGAGCGGGACAGTTTCGAGGAGGGCCAGATGGACTGGTCTTCCGAGGGCGGCAGCGGAAG
CGGCAGCTCAAGCAATCGCGACGATGATGACGACACCGACTTCCAGGAATTTCGCGCGGCCCAGACCAGCCTGCGCGACC
ATCTGGACAGCCAGGTGTCGCTGATTCCCCTGTCCGACCGGGACCGCGAGCTGGTGCGCTTCATGATCGAAGCGCTGGAT
GACGACGGCTACCTCTCGCAGCCGCCGGAGGAACTCCTGGAGCTGCTGCCCGCCGAAGCCGAAGTGGAACTCGAAGAATT
GCAGATCGCGCTGGCGCACGTGCAGAACCTGGACCCGCCCGGCGTGGGCGCGCGTTCTCCGGGCGAATGCCTGAGCCTGC
AGCTGCGAACCCTCCCCCAGAATCCGGTGCGCGACCTCGCGATCGCCATCTGCAATCAACACCTTGAGTTGCTGGCTTCG
CGCGATTTCGTGCGGCTCAAGCGCCTGCTTGGCTGCGGCGACGACAGCCTGCGCGAAGCGCATCAGCTCGTCTGCGGCCT
CGACCCGCGCCCGGGCTCGCGCTTTGCGGCGCTGGATGCGCGCTACATCGTTCCCGATGTCGTGGTGCGCAAATACCGCG
GACACTGGAACGCTTCGCTCAACGGCGACGCCGTGCCGCGCCTGCGCATCAACCAGCTCTACGCGGGCATCCTGCAGCAG
CACCGTGGCTCCAGCGCATCGCTGTCTTCGCAGCTGCAGGAGGCACGCTGGATGATCAAGAACGTCCAGCAGCGATTTGA
CACGATCTTGCGAGTCTCCCAGGCGATCGTGGACCGCCAGCGGCAGTTTTTCGACTATGGTGATGTCGCCATGCGGCCGC
TGACGCTGCGGGAAATCGCTGAGCAACTTGATCTACATGAATCAACCATCTCGCGGGTGACGACGCAGAAGTACATGGCG
ACGCCGCGGGGTATCCTTGAGCTGAAGTACTTTTTTGGCAGCCACGTCTCTACGGATTCTGGTGGAGCGTGCTCAGCAAC
GGCGATTCGCGCGCTGATTCGCCAGCTGGTCGCGGCGGAAGACAGGAAGAAACCCCTGTCCGATGCCAGGATTGCCGAAC
TCCTTGGCCAGCAGGGTATCGTTGTGGCGCGCCGAACGATCGCAAAGTACCGCGAAGCGCTCAACATCCCGCCGGTCAGC
CAGCGCAAGATGATCTGA

Domains

Predicted by InterproScan.

Sigma-54 factor, core binding domain (Sigma54_CBD)

(121-314)

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

(4-48)

Sigma-54, DNA binding domain (Sigma54_DBD)

(328-483)


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

56.088

100

0.579

Multiple sequence alignment