Detailed information    

insolico Bioinformatically predicted

Overview

Name   rpoN/rpoN1   Type   Machinery gene
Locus tag   NMD78_RS13605 Genome accession   NZ_CP100824
Coordinates   2950956..2952425 (+) Length   489 a.a.
NCBI ID   WP_370549230.1    Uniprot ID   -
Organism   Edwardsiella tarda strain GT59     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 2945956..2957425
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  NMD78_RS13575 (NMD78_13530) - 2946385..2947374 (+) 990 WP_370549229.1 calcium/sodium antiporter -
  NMD78_RS13580 (NMD78_13535) kdsD 2947428..2948414 (+) 987 WP_205438784.1 arabinose-5-phosphate isomerase KdsD -
  NMD78_RS13585 (NMD78_13540) kdsC 2948430..2948996 (+) 567 WP_205438785.1 3-deoxy-manno-octulosonate-8-phosphatase KdsC -
  NMD78_RS13590 (NMD78_13545) lptC 2948993..2949565 (+) 573 WP_205438786.1 LPS export ABC transporter periplasmic protein LptC -
  NMD78_RS13595 (NMD78_13550) lptA 2949540..2950097 (+) 558 WP_205438787.1 lipopolysaccharide ABC transporter substrate-binding protein LptA -
  NMD78_RS13600 (NMD78_13555) lptB 2950104..2950829 (+) 726 WP_005281703.1 LPS export ABC transporter ATP-binding protein -
  NMD78_RS13605 (NMD78_13560) rpoN/rpoN1 2950956..2952425 (+) 1470 WP_370549230.1 RNA polymerase factor sigma-54 Machinery gene
  NMD78_RS13610 (NMD78_13565) hpf 2952447..2952734 (+) 288 WP_024524583.1 ribosome hibernation promoting factor -
  NMD78_RS13615 (NMD78_13570) ptsN 2952869..2953315 (+) 447 WP_005297331.1 PTS IIA-like nitrogen regulatory protein PtsN -
  NMD78_RS13620 (NMD78_13575) rapZ 2953423..2954274 (+) 852 WP_005281696.1 RNase adapter RapZ -
  NMD78_RS13625 (NMD78_13580) npr 2954282..2954554 (+) 273 WP_205438789.1 PTS phosphocarrier protein NPr -
  NMD78_RS13630 (NMD78_13585) rnk 2954731..2955141 (+) 411 WP_370549231.1 nucleoside diphosphate kinase regulator -
  NMD78_RS13635 (NMD78_13590) - 2955173..2955688 (-) 516 WP_205438791.1 cytochrome b/b6 domain-containing protein -
  NMD78_RS13640 (NMD78_13595) cybC 2955694..2956080 (-) 387 WP_205438792.1 cytochrome b562 -
  NMD78_RS13645 (NMD78_13600) deoD 2956453..2957178 (-) 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=707150 NMD78_RS13605 WP_370549230.1 2950956..2952425(+) (rpoN/rpoN1) [Edwardsiella tarda strain GT59]
MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQEIQQALESNPLLEQLDPNEEAGDDGVVLESTQEDAVTRDDADPLD
SREALEQREMPDELPLDASWDEIYTAGTPSGTGTDYHDDELPVFQGETTQTLQDYLMWQVELTPFSDTDLAIATAIVDAV
DDTGYLSASLEEILESLGDDRVLPEEIEAVLKRIQRFDPVGVAARDLRDCLLVQLSQFADDTPYLNEARSIVDRHLDLLG
NHDFRNLMRSTKLKEEVLKAAMQLIQNLDPRPGLSINTGESDYVIPDVLVHKHQERWVVELNQDSVPRLRINQHYAALGT
QARNDSDSQFIRSNLQEAKWLIKSLESRNDTLLKVSRCIVEQQQAFFEHGPEAMKPMVLADIAQQVEMHESTISRVTTQK
FLHSPRGIFELKYFFSSHVSTEDGGEASSTAIRALVKKLIAAENPAKPLSDSKLTTLLADQGIMVARRTVAKYRESLSIP
PSNQRKQLV

Nucleotide


Download         Length: 1470 bp        

>NTDB_id=707150 NMD78_RS13605 WP_370549230.1 2950956..2952425(+) (rpoN/rpoN1) [Edwardsiella tarda strain GT59]
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