Detailed information    

insolico Bioinformatically predicted

Overview

Name   rpoN/rpoN1   Type   Machinery gene
Locus tag   TBD_RS02695 Genome accession   NC_007404
Coordinates   557855..559291 (-) Length   478 a.a.
NCBI ID   WP_011311045.1    Uniprot ID   -
Organism   Thiobacillus denitrificans ATCC 25259     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 552855..564291
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  TBD_RS02655 (Tbd_0525) - 552907..553503 (-) 597 WP_148202996.1 LON peptidase substrate-binding domain-containing protein -
  TBD_RS02660 (Tbd_0526) - 553500..554117 (-) 618 WP_011311038.1 flavin prenyltransferase UbiX -
  TBD_RS02665 (Tbd_0527) - 554151..554699 (-) 549 WP_011311039.1 Gx transporter family protein -
  TBD_RS02670 (Tbd_0528) - 554680..555042 (-) 363 WP_011311040.1 NusG domain II-containing protein -
  TBD_RS02675 (Tbd_0529) rapZ 555042..555878 (-) 837 WP_011311041.1 RNase adapter RapZ -
  TBD_RS02680 (Tbd_0530) hprK 555878..556816 (-) 939 WP_011311042.1 HPr(Ser) kinase/phosphatase -
  TBD_RS02685 (Tbd_0531) - 556823..557278 (-) 456 WP_011311043.1 PTS sugar transporter subunit IIA -
  TBD_RS02690 (Tbd_0532) raiA 557364..557699 (-) 336 WP_011311044.1 ribosome hibernation-promoting factor, HPF/YfiA family -
  TBD_RS02695 (Tbd_0533) rpoN/rpoN1 557855..559291 (-) 1437 WP_011311045.1 RNA polymerase factor sigma-54 Machinery gene
  TBD_RS02700 (Tbd_0534) lptB 559359..560081 (-) 723 WP_011311046.1 LPS export ABC transporter ATP-binding protein -
  TBD_RS02705 (Tbd_0535) lptA 560078..560611 (-) 534 WP_011311047.1 lipopolysaccharide transport periplasmic protein LptA -
  TBD_RS02710 (Tbd_0536) lptC 560616..561188 (-) 573 WP_011311048.1 LPS export ABC transporter periplasmic protein LptC -
  TBD_RS02715 (Tbd_0537) - 561223..561750 (-) 528 WP_011311049.1 KdsC family phosphatase -
  TBD_RS02720 (Tbd_0538) - 561750..562736 (-) 987 WP_011311050.1 KpsF/GutQ family sugar-phosphate isomerase -

Sequence

Protein


Download         Length: 478 a.a.        Molecular weight: 53025.07 Da        Isoelectric Point: 5.0141

>NTDB_id=24663 TBD_RS02695 WP_011311045.1 557855..559291(-) (rpoN/rpoN1) [Thiobacillus denitrificans ATCC 25259]
MKHSLQLKLGQHLTLTPQLQQSIRLLQLSTLELNQELEQMLQDNPLLEREDDDEANHAATEAPAHTAEAEAQSSETPQLE
RAEAEPVTTLDDSDWNDYSAGSADEDEDGDYAQGSVAGATLREHLLNQLIVSPLTVRDRVLVAALIDDLDEAGFLTQPLE
DITASLRDELEDLEHEEVETALKHLQNMDPTGVGARNLAECLTLQLRALPDDTPVRAAAMRLTTHYLELLAARDVGKLKK
MLGIDDPTLRAARALILSLNPRPGSAFSAEQTHYVIPDVYVRKVKGMWIASLNADAMPKLRVNRVYADILARHRESGGSQ
LASQLQEARWLIKNVQQRFDTILRVSQAIVDRQKHFFEHGEVAMRPLVLREIADAVDLHESTISRVTTQKFMMTPRGLYE
LKYFFGSHVATDNGGACSSTAIRALIKQLIAAESGKKPLSDGQLADVLGQQGIVVARRTVAKYRESLQIPPANMRRAL

Nucleotide


Download         Length: 1437 bp        

>NTDB_id=24663 TBD_RS02695 WP_011311045.1 557855..559291(-) (rpoN/rpoN1) [Thiobacillus denitrificans ATCC 25259]
ATGAAACACAGCCTCCAGCTCAAGCTCGGTCAGCATCTCACGCTGACGCCTCAGCTGCAGCAGTCGATCCGGCTGCTGCA
GCTGTCGACGCTCGAGTTGAACCAGGAACTCGAGCAGATGCTGCAGGACAATCCGCTGCTCGAACGCGAGGACGACGACG
AGGCGAACCACGCCGCGACCGAAGCACCGGCGCACACCGCGGAAGCCGAAGCGCAAAGCAGCGAAACGCCGCAACTCGAG
CGCGCCGAGGCGGAGCCCGTGACGACGCTCGACGACTCCGACTGGAACGACTACAGCGCCGGCAGTGCCGACGAGGACGA
GGACGGCGATTACGCCCAAGGTTCGGTCGCGGGCGCGACGCTGCGCGAACACCTGCTCAACCAGCTGATCGTGAGCCCGC
TCACCGTGCGCGACCGCGTGCTCGTCGCCGCACTCATCGACGATCTCGACGAAGCCGGTTTCCTCACCCAGCCGCTCGAA
GACATCACGGCGAGCCTGCGCGACGAACTCGAGGACCTCGAGCACGAGGAAGTCGAAACCGCGCTCAAGCACCTGCAGAA
CATGGACCCGACCGGCGTCGGCGCGCGCAATCTGGCCGAATGCCTGACGCTGCAACTGCGCGCCCTTCCCGACGACACGC
CGGTGCGCGCGGCAGCGATGCGGCTCACCACGCACTATCTCGAGCTGCTGGCGGCGCGCGACGTCGGCAAGCTGAAAAAA
ATGCTCGGGATCGACGATCCGACGCTGCGCGCGGCGCGCGCGCTGATCCTCTCGCTCAATCCGCGGCCCGGCTCGGCCTT
CAGCGCCGAACAGACGCACTACGTCATCCCCGACGTCTACGTGCGCAAGGTCAAGGGCATGTGGATCGCGAGCCTGAACG
CCGACGCGATGCCCAAGCTGCGGGTCAACCGCGTCTACGCCGACATCCTGGCGCGACATCGCGAATCGGGCGGCAGCCAG
CTCGCGAGCCAGCTACAGGAGGCGCGCTGGCTGATCAAGAACGTCCAGCAACGCTTCGACACGATCCTGCGCGTCTCTCA
GGCGATCGTCGATCGGCAGAAGCATTTCTTCGAGCACGGCGAGGTCGCGATGCGGCCGCTGGTGCTGCGGGAGATCGCCG
ACGCGGTCGATCTGCACGAATCGACGATCTCGCGCGTGACGACGCAGAAATTCATGATGACCCCGCGCGGCCTCTACGAA
CTCAAGTACTTCTTCGGCAGCCACGTCGCGACCGACAACGGCGGCGCGTGCTCGTCGACCGCGATCCGCGCGCTGATCAA
GCAGTTGATCGCCGCCGAAAGCGGCAAGAAGCCGTTGTCCGACGGTCAGCTCGCCGACGTCCTCGGCCAGCAGGGCATCG
TCGTCGCGCGCCGAACGGTAGCCAAATACCGCGAGTCGCTGCAGATCCCTCCGGCCAACATGCGCCGCGCCCTCTGA

Domains

Predicted by InterproScan.

Sigma-54, DNA binding domain (Sigma54_DBD)

(321-476)

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

(4-48)

Sigma-54 factor, core binding domain (Sigma54_CBD)

(116-306)


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

54.582

100

0.573

Multiple sequence alignment