Detailed information    

insolico Bioinformatically predicted

Overview

Name   rpoN/rpoN1   Type   Machinery gene
Locus tag   LINBF2_RS12035 Genome accession   NZ_AP027056
Coordinates   2453075..2454646 (-) Length   523 a.a.
NCBI ID   WP_281889175.1    Uniprot ID   -
Organism   Limnohabitans sp. TEGF004     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 2448075..2459646
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  LINBF2_RS12005 (LTEGF4_23700) - 2448488..2448889 (-) 402 WP_281889168.1 4-oxalocrotonate tautomerase -
  LINBF2_RS12010 (LTEGF4_23710) - 2449246..2450145 (+) 900 WP_281889170.1 LysR family transcriptional regulator -
  LINBF2_RS12015 (LTEGF4_23720) - 2450139..2450627 (+) 489 WP_281891335.1 phosphatidylglycerophosphatase A -
  LINBF2_RS12020 (LTEGF4_23730) - 2450624..2451139 (+) 516 WP_281889172.1 CinA family protein -
  LINBF2_RS12025 (LTEGF4_23740) - 2451184..2451642 (-) 459 WP_104800497.1 putative toxin-antitoxin system toxin component, PIN family -
  LINBF2_RS12030 (LTEGF4_23750) - 2451639..2453066 (-) 1428 WP_281889174.1 THUMP domain-containing protein -
  LINBF2_RS12035 (LTEGF4_23760) rpoN/rpoN1 2453075..2454646 (-) 1572 WP_281889175.1 RNA polymerase factor sigma-54 Machinery gene
  LINBF2_RS12040 (LTEGF4_23770) lptB 2454649..2455431 (-) 783 WP_104800494.1 LPS export ABC transporter ATP-binding protein -
  LINBF2_RS12045 (LTEGF4_23780) lptA 2455428..2455985 (-) 558 WP_348773708.1 lipopolysaccharide transport periplasmic protein LptA -
  LINBF2_RS12050 (LTEGF4_23790) - 2456061..2456717 (-) 657 WP_281889177.1 thiol:disulfide interchange protein DsbA/DsbL -
  LINBF2_RS12055 (LTEGF4_23800) - 2456736..2457422 (-) 687 WP_281889179.1 SPOR domain-containing protein -
  LINBF2_RS12060 (LTEGF4_23810) argS 2457443..2459152 (-) 1710 WP_281889180.1 arginine--tRNA ligase -

Sequence

Protein


Download         Length: 523 a.a.        Molecular weight: 58123.64 Da        Isoelectric Point: 4.6915

>NTDB_id=99433 LINBF2_RS12035 WP_281889175.1 2453075..2454646(-) (rpoN/rpoN1) [Limnohabitans sp. TEGF004]
MKQGLSLRVSQHLALTPQLQQSIRLLQLSTLELSQEIEQMLDENPFLDKEFEEAPREEFGLDKADTPSRDEEVEPMREVP
SMDGGMSEISVDNTASDTEPSVDGIAESWDGDGSVEFSADDSEWGGDAPASNNNNTADSDTADATELARMQESLTSHLHR
QALSLRLSPTDTAALRYLIENLNDDGYLEDTLRSLAEGLGGDDEEQIEELEHRFQVALSLLQSLEPVGVGARDLAECLTL
QLKALTPKGEEALQIRDTAILMCKQPMEMLAKRDFKRLAVIVGDSEANVKVAIALIGRLEPKPGRRFADVERHVVVPDVL
VTRVGKSTIAPKFKVALNPDVMPRLRVHDIYANALKGGKGDNHAGLQQRLQEARWFIKNIQQRFDTILRVSNAIAERQKN
FFIHGELAMRPMVLREIAEELGLHESTISRVTTNKYMSTPFGTFELKYFFGSGLETDSGNNASSTAVRALIKQFVASENP
KKPLSDNQLSEMLKEQGIECARRTVAKYREALRIAPTTLRKAL

Nucleotide


Download         Length: 1572 bp        

>NTDB_id=99433 LINBF2_RS12035 WP_281889175.1 2453075..2454646(-) (rpoN/rpoN1) [Limnohabitans sp. TEGF004]
ATGAAGCAAGGCTTATCACTCCGTGTCTCCCAACATCTGGCGCTCACGCCCCAGTTGCAGCAGTCGATCCGACTGTTGCA
GTTGTCGACGTTGGAGCTGAGCCAAGAGATTGAGCAAATGCTCGACGAGAACCCGTTTCTCGACAAAGAGTTTGAAGAAG
CCCCGCGCGAAGAGTTTGGCCTCGACAAAGCCGATACACCGAGCCGCGACGAAGAGGTTGAGCCCATGCGCGAAGTGCCG
TCGATGGACGGCGGCATGTCTGAAATCAGCGTAGATAACACGGCCAGCGATACCGAACCCAGCGTGGACGGCATTGCTGA
AAGTTGGGATGGCGATGGCAGTGTGGAGTTTTCTGCCGACGATTCCGAGTGGGGCGGCGATGCCCCTGCCAGCAATAACA
ACAACACCGCTGACAGTGACACTGCCGATGCCACTGAGCTGGCGCGCATGCAAGAGTCGCTCACCTCGCATTTGCACCGC
CAAGCGCTGTCGCTGCGCCTCAGCCCCACCGATACGGCCGCGCTGCGCTACTTGATTGAAAACCTCAACGACGATGGTTA
TCTTGAAGACACCTTGCGCAGCTTGGCCGAAGGTTTGGGCGGGGACGACGAAGAGCAAATCGAAGAGCTGGAGCATCGCT
TCCAAGTGGCTCTGTCTCTGTTGCAAAGCCTCGAGCCCGTAGGTGTGGGCGCACGCGATTTGGCCGAGTGCTTGACGCTG
CAACTCAAAGCGCTGACGCCCAAAGGCGAAGAAGCATTGCAGATTCGCGACACGGCAATTCTTATGTGTAAGCAGCCGAT
GGAGATGTTGGCCAAGCGCGATTTCAAACGCCTCGCCGTCATCGTCGGTGACAGCGAAGCCAACGTCAAAGTAGCGATTG
CCCTGATCGGTCGCTTAGAGCCCAAGCCAGGCCGCCGCTTTGCTGATGTAGAGCGCCATGTGGTGGTGCCTGATGTGTTG
GTGACCCGCGTGGGCAAATCCACCATCGCGCCTAAATTCAAGGTCGCGCTTAACCCCGATGTGATGCCCCGTTTGCGCGT
GCACGACATTTATGCCAACGCCCTCAAAGGCGGCAAGGGCGACAACCATGCGGGCTTGCAACAACGCTTGCAAGAGGCGC
GTTGGTTCATCAAAAACATTCAGCAACGCTTTGACACCATCTTGCGCGTGAGCAACGCCATTGCTGAGCGCCAGAAAAAC
TTCTTCATCCACGGTGAACTTGCCATGCGCCCGATGGTGCTGCGCGAAATTGCCGAAGAGTTGGGGTTGCACGAATCCAC
CATCAGCCGCGTGACCACCAACAAATACATGAGCACGCCCTTTGGCACGTTTGAGCTCAAGTATTTCTTTGGCTCGGGGC
TAGAGACCGACAGCGGCAACAACGCATCCAGCACAGCGGTGCGCGCGCTCATCAAGCAATTTGTGGCGAGCGAGAACCCC
AAAAAGCCGCTATCGGATAATCAACTCTCCGAAATGCTCAAAGAGCAAGGCATTGAGTGCGCACGCCGCACCGTGGCCAA
ATACCGTGAGGCGCTGCGTATTGCGCCCACGACACTGCGCAAAGCGCTTTAA

Domains

Predicted by InterproScan.

Sigma-54 factor, core binding domain (Sigma54_CBD)

(146-351)

Sigma-54, DNA binding domain (Sigma54_DBD)

(366-521)

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

(5-48)


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

49.064

100

0.501

Multiple sequence alignment