Detailed information    

insolico Bioinformatically predicted

Overview

Name   rpoN/rpoN1   Type   Machinery gene
Locus tag   VA613_RS03020 Genome accession   NZ_CP141769
Coordinates   617457..618896 (-) Length   479 a.a.
NCBI ID   WP_324780384.1    Uniprot ID   -
Organism   Thiobacillus sedimenti strain SCUT-2     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 612457..623896
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  VA613_RS02985 (VA613_02985) - 612996..613613 (-) 618 WP_324780377.1 flavin prenyltransferase UbiX -
  VA613_RS02990 (VA613_02990) - 613703..614266 (-) 564 WP_324780378.1 Gx transporter family protein -
  VA613_RS02995 (VA613_02995) - 614247..614612 (-) 366 WP_324780379.1 NusG domain II-containing protein -
  VA613_RS03000 (VA613_03000) rapZ 614609..615445 (-) 837 WP_324780380.1 RNase adapter RapZ -
  VA613_RS03005 (VA613_03005) hprK 615446..616399 (-) 954 WP_324780381.1 HPr(Ser) kinase/phosphatase -
  VA613_RS03010 (VA613_03010) - 616416..616871 (-) 456 WP_324780382.1 PTS sugar transporter subunit IIA -
  VA613_RS03015 (VA613_03015) hpf 616965..617300 (-) 336 WP_324780383.1 ribosome hibernation-promoting factor, HPF/YfiA family -
  VA613_RS03020 (VA613_03020) rpoN/rpoN1 617457..618896 (-) 1440 WP_324780384.1 RNA polymerase factor sigma-54 Machinery gene
  VA613_RS03025 (VA613_03025) lptB 618969..619691 (-) 723 WP_324780385.1 LPS export ABC transporter ATP-binding protein -
  VA613_RS03030 (VA613_03030) lptA 619688..620224 (-) 537 WP_324780386.1 lipopolysaccharide transport periplasmic protein LptA -
  VA613_RS03035 (VA613_03035) lptC 620228..620800 (-) 573 WP_324780387.1 LPS export ABC transporter periplasmic protein LptC -
  VA613_RS03040 (VA613_03040) - 620847..621374 (-) 528 WP_324780388.1 HAD-IIIA family hydrolase -
  VA613_RS03045 (VA613_03045) - 621374..622360 (-) 987 WP_324780389.1 KpsF/GutQ family sugar-phosphate isomerase -

Sequence

Protein


Download         Length: 479 a.a.        Molecular weight: 52803.76 Da        Isoelectric Point: 4.8422

>NTDB_id=919300 VA613_RS03020 WP_324780384.1 617457..618896(-) (rpoN/rpoN1) [Thiobacillus sedimenti strain SCUT-2]
MKHSLQLKLGQHLTLTPQLQQSIRLLQLSTLELNQELEQMLQDNPLLEREDEDESAYATPDEAGAAAGEAEGQGTTEAAQ
PDHPEGEPSTALDEADWNDYSAASGDEEDSDFAHGAISGATLREHLFNQLIVSPLTLRDRTLVAALIDDLDEAGFLTQPL
EDIAASLTGEIEDLEPEELETALKHLQNMDPTGVGARSLAECLTLQLRALPADTPARDAAMRLTTHYLDLLAARDVGKLK
KMLGIDDATLRTARALILSLNPRPGTAFGRDETHYVIPDVYVRKVKGMWIASLNADAMPKLRVNRVYADILARHREAGGS
QLASQLQEARWLIKNVQQRFDTILRVSQAIVDRQKQFFEHGEVAMRPLVLREIAEAVDLHESTISRVTTQKYMMTPRGLY
ELKYFFGSHVATDSGGACSSTAIRALIKQLVAAENARKPLSDGQLAEVLGQQGIVVARRTVAKYRESLQIPPANMRRAL

Nucleotide


Download         Length: 1440 bp        

>NTDB_id=919300 VA613_RS03020 WP_324780384.1 617457..618896(-) (rpoN/rpoN1) [Thiobacillus sedimenti strain SCUT-2]
ATGAAACACAGTCTTCAACTCAAGCTTGGGCAACATCTCACGCTGACGCCCCAGCTGCAGCAGTCGATCCGACTGCTGCA
GCTGTCGACGCTGGAACTCAACCAGGAACTCGAGCAGATGCTGCAGGACAATCCCCTCCTCGAGCGCGAGGACGAGGATG
AGTCCGCCTATGCGACGCCGGACGAGGCGGGCGCCGCTGCGGGCGAGGCCGAAGGTCAGGGCACGACGGAGGCGGCCCAG
CCCGACCATCCGGAAGGCGAGCCCTCCACGGCCCTCGACGAGGCCGACTGGAACGACTACAGCGCCGCGAGCGGCGACGA
GGAAGACAGCGATTTCGCCCACGGCGCCATCTCCGGCGCGACCCTCCGCGAGCACCTGTTCAACCAGCTGATCGTCAGCC
CGCTCACGCTGCGCGACCGCACCCTGGTCGCCGCGCTGATCGACGACCTGGACGAGGCGGGCTTCCTGACCCAGCCGCTG
GAGGACATCGCCGCCAGCCTCACGGGCGAGATCGAGGACCTCGAACCCGAGGAACTCGAGACGGCGCTCAAGCACCTGCA
GAACATGGACCCGACCGGCGTCGGCGCGCGCAGCCTGGCCGAGTGCCTGACGCTCCAGCTGCGCGCCCTGCCCGCGGACA
CGCCGGCGCGCGACGCGGCGATGCGGCTGACGACGCATTACCTGGATCTGCTCGCGGCCCGCGACGTGGGGAAGCTGAAG
AAGATGCTCGGCATCGACGACGCCACCCTGCGCACCGCGCGCGCGCTGATCCTGTCGCTCAACCCGCGGCCCGGCACGGC
CTTCGGGCGCGACGAGACGCACTACGTCATCCCCGATGTCTACGTGCGCAAGGTCAAGGGCATGTGGATCGCCAGCCTCA
ACGCCGACGCCATGCCCAAGCTGCGCGTCAATCGCGTCTATGCCGACATCCTGGCCCGCCACCGTGAAGCCGGCGGCAGC
CAGCTTGCCAGCCAGCTGCAGGAGGCGCGCTGGCTGATCAAGAACGTGCAGCAGCGCTTCGACACGATCCTGCGCGTCTC
CCAGGCCATCGTCGACCGCCAGAAGCAGTTCTTCGAGCACGGCGAGGTCGCGATGCGCCCGCTGGTGCTGCGCGAAATCG
CCGAAGCCGTCGACTTGCACGAGTCGACCATCTCCCGCGTCACCACGCAGAAATACATGATGACGCCGCGCGGCCTGTAC
GAACTGAAATATTTCTTCGGCAGCCACGTCGCCACCGACAGTGGCGGCGCCTGTTCGTCGACGGCCATCCGCGCCCTGAT
CAAGCAGCTGGTTGCGGCCGAGAATGCCAGGAAGCCGCTGTCCGACGGCCAGCTCGCCGAGGTGCTCGGGCAGCAGGGCA
TCGTGGTGGCGCGCCGCACGGTCGCCAAATACCGCGAGTCGCTGCAGATTCCGCCCGCCAACATGCGCCGGGCGCTGTGA

Domains

Predicted by InterproScan.

Sigma-54, DNA binding domain (Sigma54_DBD)

(322-477)

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

(4-48)

Sigma-54 factor, core binding domain (Sigma54_CBD)

(117-307)


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

55.666

100

0.585