Detailed information    

insolico Bioinformatically predicted

Overview

Name   rpoN/rpoN1   Type   Machinery gene
Locus tag   NMD63_RS13750 Genome accession   NZ_CP100873
Coordinates   3009521..3010990 (+) Length   489 a.a.
NCBI ID   WP_005281701.1    Uniprot ID   D4F169
Organism   Edwardsiella tarda strain GT9     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 3004521..3015990
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  NMD63_RS13720 (NMD63_13685) - 3004951..3005940 (+) 990 WP_370550568.1 calcium/sodium antiporter -
  NMD63_RS13725 (NMD63_13690) kdsD 3005993..3006979 (+) 987 WP_047060479.1 arabinose-5-phosphate isomerase KdsD -
  NMD63_RS13730 (NMD63_13695) kdsC 3006995..3007561 (+) 567 WP_370550569.1 3-deoxy-manno-octulosonate-8-phosphatase KdsC -
  NMD63_RS13735 (NMD63_13700) lptC 3007558..3008130 (+) 573 WP_005281705.1 LPS export ABC transporter periplasmic protein LptC -
  NMD63_RS13740 (NMD63_13705) lptA 3008105..3008662 (+) 558 WP_005281704.1 lipopolysaccharide ABC transporter substrate-binding protein LptA -
  NMD63_RS13745 (NMD63_13710) lptB 3008669..3009394 (+) 726 WP_005281703.1 LPS export ABC transporter ATP-binding protein -
  NMD63_RS13750 (NMD63_13715) rpoN/rpoN1 3009521..3010990 (+) 1470 WP_005281701.1 RNA polymerase factor sigma-54 Machinery gene
  NMD63_RS13755 (NMD63_13720) hpf 3011012..3011299 (+) 288 WP_024524583.1 ribosome hibernation promoting factor -
  NMD63_RS13760 (NMD63_13725) ptsN 3011434..3011880 (+) 447 WP_005297331.1 PTS IIA-like nitrogen regulatory protein PtsN -
  NMD63_RS13765 (NMD63_13730) rapZ 3011985..3012836 (+) 852 WP_005281696.1 RNase adapter RapZ -
  NMD63_RS13770 (NMD63_13735) npr 3012844..3013116 (+) 273 WP_005281695.1 PTS phosphocarrier protein NPr -
  NMD63_RS13775 (NMD63_13740) rnk 3013293..3013703 (+) 411 WP_068871249.1 nucleoside diphosphate kinase regulator -
  NMD63_RS13780 (NMD63_13745) - 3013734..3014249 (-) 516 WP_068871247.1 cytochrome b/b6 domain-containing protein -
  NMD63_RS13785 (NMD63_13750) cybC 3014255..3014641 (-) 387 WP_005291336.1 cytochrome b562 -
  NMD63_RS13790 (NMD63_13755) deoD 3014855..3015580 (-) 726 WP_005281692.1 purine-nucleoside phosphorylase -

Sequence

Protein


Download         Length: 489 a.a.        Molecular weight: 55075.91 Da        Isoelectric Point: 4.4068

>NTDB_id=707390 NMD63_RS13750 WP_005281701.1 3009521..3010990(+) (rpoN/rpoN1) [Edwardsiella tarda strain GT9]
MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQEIQQALESNPLLEQLDPNEEAGDDGVVRENTQEDVVTRDDADPLD
SREALEQREMPDELPLDASWDEIYTAGTPSGTGTDYHDDELPVFQGETTQTLQDYLMWQVELTPFSDTDLAIATAIVDAV
DDTGYLSASLEEILESLGDDRVLPEEIEAVLKRIQRFDPVGVAARDLRDCLLVQLSQFADDTPYLNEARSIVDRHLDLLG
NHDFRNLMRSTKLKEEVLKAAMQLIQSLDPRPGLSINTGESDYVIPDVLVHKHQERWVVELNQDSVPRLRINQHYAALGT
QARNDSDSQFIRSNLQEAKWLIKSLESRNDTLLKVSRCIVEQQQAFFEHGPEAMKPMVLADIAQQVEMHESTISRVTTQK
FLHSPRGIFELKYFFSSHVSTEDGGEASSTAIRALVKKLIAAENPAKPLSDSKLTTLLADQGIMVARRTVAKYRESLSIP
PSNQRKQLV

Nucleotide


Download         Length: 1470 bp        

>NTDB_id=707390 NMD63_RS13750 WP_005281701.1 3009521..3010990(+) (rpoN/rpoN1) [Edwardsiella tarda strain GT9]
ATGAAGCAAGGCTTGCAACTCAGACTCAGCCAGCAGTTGGCCATGACGCCCCAACTGCAACAGGCCATTCGCCTGTTGCA
GCTCTCGACGCTGGAGTTACAGCAAGAGATCCAGCAGGCGTTGGAAAGCAATCCTCTGCTGGAACAACTGGATCCCAATG
AGGAAGCCGGCGACGACGGCGTCGTTCGCGAGAATACACAGGAGGATGTCGTCACACGCGATGATGCCGATCCACTGGAT
AGCCGCGAGGCGTTGGAGCAACGTGAGATGCCGGACGAGCTGCCGCTGGATGCCAGCTGGGACGAGATCTATACCGCTGG
CACCCCCTCAGGCACGGGAACGGATTATCATGACGACGAGTTACCCGTGTTTCAGGGAGAGACGACCCAAACGCTGCAGG
ACTATCTGATGTGGCAGGTCGAACTGACCCCCTTCAGTGATACCGATCTGGCCATCGCTACCGCCATCGTCGATGCCGTC
GACGATACCGGCTATCTCAGCGCCTCGTTGGAGGAGATCCTCGAGAGTCTAGGGGACGATCGCGTCCTACCGGAAGAGAT
CGAGGCCGTCCTCAAGCGCATCCAACGTTTTGATCCGGTCGGTGTCGCCGCGCGTGATCTGCGCGACTGCCTACTGGTCC
AGCTCTCGCAATTCGCCGACGACACACCCTATCTCAACGAGGCTCGTAGCATCGTCGATCGCCACCTCGATCTGTTGGGT
AATCACGATTTCCGAAATCTGATGCGTTCGACTAAGCTAAAAGAAGAGGTGCTCAAGGCGGCGATGCAACTGATCCAGAG
CCTCGACCCGCGGCCAGGACTCTCCATCAATACCGGCGAGTCTGACTATGTCATCCCCGACGTGCTGGTGCATAAACATC
AGGAACGCTGGGTGGTTGAGCTCAATCAGGACAGCGTCCCGCGCCTGCGTATCAATCAACATTACGCCGCGCTGGGCACT
CAGGCGCGTAACGATAGCGACAGCCAGTTCATTCGTAGCAATCTGCAAGAAGCGAAGTGGCTGATCAAGAGCCTAGAGAG
CCGTAACGATACCCTGCTGAAGGTATCGCGTTGCATCGTAGAGCAGCAGCAAGCGTTCTTCGAGCACGGGCCGGAGGCGA
TGAAGCCGATGGTGCTGGCAGATATCGCTCAGCAAGTCGAAATGCACGAGTCGACGATCTCACGCGTGACTACGCAGAAG
TTTCTGCACAGCCCGCGCGGAATCTTTGAACTGAAATATTTCTTCTCCAGCCATGTCAGCACCGAGGACGGCGGCGAGGC
CTCCTCCACTGCCATCCGGGCGCTGGTGAAGAAACTGATCGCGGCAGAAAATCCGGCGAAGCCGCTGAGTGATAGCAAAC
TTACCACTCTATTGGCAGATCAGGGTATCATGGTCGCCCGGCGTACTGTCGCAAAATACCGAGAGTCTTTGTCCATTCCA
CCGTCCAATCAGCGTAAACAGCTGGTGTGA

Domains

Predicted by InterproScan.

Sigma-54, DNA binding domain (Sigma54_DBD)

(329-487)

Sigma-54 factor, core binding domain (Sigma54_CBD)

(128-315)

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
  AlphaFold DB D4F169

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