Detailed information    

insolico Bioinformatically predicted

Overview

Name   rpoN/rpoN1   Type   Machinery gene
Locus tag   NMD68_RS13635 Genome accession   NZ_CP100861
Coordinates   2947587..2949056 (+) Length   489 a.a.
NCBI ID   WP_370549230.1    Uniprot ID   -
Organism   Edwardsiella tarda strain GT18     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 2942587..2954056
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  NMD68_RS13605 (NMD68_13590) - 2943016..2944005 (+) 990 WP_370549229.1 calcium/sodium antiporter -
  NMD68_RS13610 (NMD68_13595) kdsD 2944059..2945045 (+) 987 WP_205438784.1 arabinose-5-phosphate isomerase KdsD -
  NMD68_RS13615 (NMD68_13600) kdsC 2945061..2945627 (+) 567 WP_205438785.1 3-deoxy-manno-octulosonate-8-phosphatase KdsC -
  NMD68_RS13620 (NMD68_13605) lptC 2945624..2946196 (+) 573 WP_205438786.1 LPS export ABC transporter periplasmic protein LptC -
  NMD68_RS13625 (NMD68_13610) lptA 2946171..2946728 (+) 558 WP_205438787.1 lipopolysaccharide ABC transporter substrate-binding protein LptA -
  NMD68_RS13630 (NMD68_13615) lptB 2946735..2947460 (+) 726 WP_005281703.1 LPS export ABC transporter ATP-binding protein -
  NMD68_RS13635 (NMD68_13620) rpoN/rpoN1 2947587..2949056 (+) 1470 WP_370549230.1 RNA polymerase factor sigma-54 Machinery gene
  NMD68_RS13640 (NMD68_13625) hpf 2949078..2949365 (+) 288 WP_024524583.1 ribosome hibernation promoting factor -
  NMD68_RS13645 (NMD68_13630) ptsN 2949500..2949946 (+) 447 WP_005297331.1 PTS IIA-like nitrogen regulatory protein PtsN -
  NMD68_RS13650 (NMD68_13635) rapZ 2950054..2950905 (+) 852 WP_005281696.1 RNase adapter RapZ -
  NMD68_RS13655 (NMD68_13640) npr 2950913..2951185 (+) 273 WP_205438789.1 PTS phosphocarrier protein NPr -
  NMD68_RS13660 (NMD68_13645) rnk 2951362..2951772 (+) 411 WP_370549231.1 nucleoside diphosphate kinase regulator -
  NMD68_RS13665 (NMD68_13650) - 2951804..2952319 (-) 516 WP_205438791.1 cytochrome b/b6 domain-containing protein -
  NMD68_RS13670 (NMD68_13655) cybC 2952325..2952711 (-) 387 WP_205438792.1 cytochrome b562 -
  NMD68_RS13675 (NMD68_13660) deoD 2953084..2953809 (-) 726 WP_005281692.1 purine-nucleoside phosphorylase -

Sequence

Protein


Download         Length: 489 a.a.        Molecular weight: 55004.83 Da        Isoelectric Point: 4.3808

>NTDB_id=707310 NMD68_RS13635 WP_370549230.1 2947587..2949056(+) (rpoN/rpoN1) [Edwardsiella tarda strain GT18]
MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQEIQQALESNPLLEQLDPNEEAGDDGVVLESTQEDAVTRDDADPLD
SREALEQREMPDELPLDASWDEIYTAGTPSGTGTDYHDDELPVFQGETTQTLQDYLMWQVELTPFSDTDLAIATAIVDAV
DDTGYLSASLEEILESLGDDRVLPEEIEAVLKRIQRFDPVGVAARDLRDCLLVQLSQFADDTPYLNEARSIVDRHLDLLG
NHDFRNLMRSTKLKEEVLKAAMQLIQNLDPRPGLSINTGESDYVIPDVLVHKHQERWVVELNQDSVPRLRINQHYAALGT
QARNDSDSQFIRSNLQEAKWLIKSLESRNDTLLKVSRCIVEQQQAFFEHGPEAMKPMVLADIAQQVEMHESTISRVTTQK
FLHSPRGIFELKYFFSSHVSTEDGGEASSTAIRALVKKLIAAENPAKPLSDSKLTTLLADQGIMVARRTVAKYRESLSIP
PSNQRKQLV

Nucleotide


Download         Length: 1470 bp        

>NTDB_id=707310 NMD68_RS13635 WP_370549230.1 2947587..2949056(+) (rpoN/rpoN1) [Edwardsiella tarda strain GT18]
ATGAAGCAAGGCTTGCAACTCAGACTCAGCCAGCAGCTGGCCATGACGCCCCAACTGCAGCAGGCCATTCGCCTGTTGCA
GCTCTCGACGCTGGAGTTACAACAAGAGATCCAGCAGGCGTTGGAAAGCAATCCTCTGCTGGAACAACTGGATCCCAATG
AGGAAGCCGGCGACGACGGCGTCGTTCTCGAGAGTACACAGGAGGATGCCGTCACACGCGATGACGCCGATCCACTGGAT
AGCCGTGAGGCGTTGGAGCAACGAGAGATGCCGGACGAGCTGCCGCTAGATGCCAGCTGGGACGAGATCTATACCGCTGG
CACCCCCTCTGGCACGGGAACGGACTATCATGACGACGAGTTACCCGTATTTCAGGGAGAGACGACCCAAACGCTGCAGG
ACTATCTGATGTGGCAGGTCGAACTGACCCCCTTCAGTGATACCGATCTGGCCATCGCTACCGCCATCGTCGATGCCGTC
GACGATACCGGCTATCTCAGCGCCTCGTTGGAGGAGATCCTCGAGAGTCTGGGGGATGATCGCGTCCTACCGGAAGAGAT
CGAGGCCGTCCTCAAGCGCATCCAACGTTTTGACCCGGTCGGTGTCGCCGCGCGTGATCTGCGCGACTGCCTACTGGTCC
AGCTCTCGCAATTCGCCGACGACACCCCCTATCTCAACGAGGCTCGTAGCATCGTCGATCGCCACCTCGATCTGTTGGGT
AATCACGATTTCCGAAATCTGATGCGTTCGACTAAGCTAAAAGAAGAGGTGCTCAAGGCGGCGATGCAACTGATTCAGAA
CCTCGACCCGCGGCCGGGACTCTCCATCAATACCGGCGAGTCTGACTATGTCATCCCCGACGTGCTGGTGCATAAACATC
AGGAACGCTGGGTGGTTGAGCTCAATCAGGACAGCGTCCCGCGCCTGCGTATCAACCAACATTATGCCGCGCTGGGCACT
CAGGCGCGTAACGACAGCGACAGCCAGTTCATTCGCAGCAATCTGCAAGAGGCGAAGTGGCTGATCAAGAGTCTAGAGAG
CCGTAACGATACCCTGCTGAAGGTGTCGCGTTGCATCGTGGAGCAGCAGCAAGCGTTCTTCGAGCACGGGCCGGAGGCGA
TGAAGCCGATGGTGCTGGCAGATATCGCTCAGCAAGTCGAAATGCACGAGTCGACGATCTCACGCGTGACTACGCAGAAG
TTTCTGCACAGCCCGCGCGGAATCTTTGAACTGAAATATTTCTTCTCCAGCCATGTCAGCACCGAGGACGGCGGCGAGGC
CTCTTCCACGGCCATCCGAGCGCTGGTGAAGAAACTGATCGCGGCAGAAAATCCGGCGAAGCCGCTGAGTGATAGCAAAC
TTACCACTCTATTGGCGGATCAGGGTATCATGGTCGCCCGGCGTACTGTCGCAAAATACCGAGAGTCTTTGTCCATTCCA
CCGTCCAATCAGCGTAAACAGCTGGTGTGA

Domains

Predicted by InterproScan.

Sigma-54, DNA binding domain (Sigma54_DBD)

(329-487)

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

(5-48)

Sigma-54 factor, core binding domain (Sigma54_CBD)

(128-315)


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

45.367

100

0.481