Detailed information    

insolico Bioinformatically predicted

Overview

Name   rpoN/rpoN1   Type   Machinery gene
Locus tag   NMD65_RS13975 Genome accession   NZ_CP100867
Coordinates   3032028..3033497 (+) Length   489 a.a.
NCBI ID   WP_205438788.1    Uniprot ID   -
Organism   Edwardsiella tarda strain GT12     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 3027028..3038497
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  NMD65_RS13945 (NMD65_13885) - 3027457..3028446 (+) 990 WP_205438783.1 calcium/sodium antiporter -
  NMD65_RS13950 (NMD65_13890) kdsD 3028500..3029486 (+) 987 WP_205438784.1 arabinose-5-phosphate isomerase KdsD -
  NMD65_RS13955 (NMD65_13895) kdsC 3029502..3030068 (+) 567 WP_205438785.1 3-deoxy-manno-octulosonate-8-phosphatase KdsC -
  NMD65_RS13960 (NMD65_13900) lptC 3030065..3030637 (+) 573 WP_205438786.1 LPS export ABC transporter periplasmic protein LptC -
  NMD65_RS13965 (NMD65_13905) lptA 3030612..3031169 (+) 558 WP_205438787.1 lipopolysaccharide ABC transporter substrate-binding protein LptA -
  NMD65_RS13970 (NMD65_13910) lptB 3031176..3031901 (+) 726 WP_005281703.1 LPS export ABC transporter ATP-binding protein -
  NMD65_RS13975 (NMD65_13915) rpoN/rpoN1 3032028..3033497 (+) 1470 WP_205438788.1 RNA polymerase factor sigma-54 Machinery gene
  NMD65_RS13980 (NMD65_13920) hpf 3033519..3033806 (+) 288 WP_024524583.1 ribosome hibernation promoting factor -
  NMD65_RS13985 (NMD65_13925) ptsN 3033942..3034388 (+) 447 WP_005297331.1 PTS IIA-like nitrogen regulatory protein PtsN -
  NMD65_RS13990 (NMD65_13930) rapZ 3034496..3035347 (+) 852 WP_005281696.1 RNase adapter RapZ -
  NMD65_RS13995 (NMD65_13935) npr 3035355..3035627 (+) 273 WP_205438789.1 PTS phosphocarrier protein NPr -
  NMD65_RS14000 (NMD65_13940) rnk 3035804..3036214 (+) 411 WP_205438790.1 nucleoside diphosphate kinase regulator -
  NMD65_RS14005 (NMD65_13945) - 3036246..3036761 (-) 516 WP_205438791.1 cytochrome b/b6 domain-containing protein -
  NMD65_RS14010 (NMD65_13950) cybC 3036767..3037153 (-) 387 WP_205438792.1 cytochrome b562 -
  NMD65_RS14015 (NMD65_13955) deoD 3037526..3038251 (-) 726 WP_005281692.1 purine-nucleoside phosphorylase -

Sequence

Protein


Download         Length: 489 a.a.        Molecular weight: 54977.80 Da        Isoelectric Point: 4.3808

>NTDB_id=707350 NMD65_RS13975 WP_205438788.1 3032028..3033497(+) (rpoN/rpoN1) [Edwardsiella tarda strain GT12]
MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQEIQQALESNPLLEQLDPNEEAGDDGVVLESTQEDAVTRDDADPLD
SREALEQREMPDELPLDASWDEIYTAGTPSGTGTDYHDDELPVFQGETTQTLQDYLMWQVELTPFSDTDLAIATAIVDAV
DDTGYLSASLEEILESLGDDRVLPEEIEAVLKRIQRFDPVGVAARDLRDCLLVQLSQFADDTPYLNEARSIVDRHLDLLG
NHDFRNLMRSTKLKEEVLKAAMQLIQSLDPRPGLSINTGESDYVIPDVLVHKHQERWVVELNQDSVPRLRINQHYAALGT
QARNDSDSQFIRSNLQEAKWLIKSLESRNDTLLKVSRCIVEQQQAFFEHGPEAMKPMVLADIAQQVEMHESTISRVTTQK
FLHSPRGIFELKYFFSSHVSTEDGGEASSTAIRALVKKLIAAENPAKPLSDSKLTTLLADQGIMVARRTVAKYRESLSIP
PSNQRKQLV

Nucleotide


Download         Length: 1470 bp        

>NTDB_id=707350 NMD65_RS13975 WP_205438788.1 3032028..3033497(+) (rpoN/rpoN1) [Edwardsiella tarda strain GT12]
ATGAAGCAAGGCTTGCAACTCAGACTCAGCCAGCAGCTGGCCATGACGCCCCAACTGCAGCAGGCCATTCGCCTGTTGCA
GCTCTCGACGTTGGAGTTACAACAAGAGATCCAGCAGGCGTTGGAAAGCAATCCTCTGCTGGAACAACTGGATCCCAATG
AGGAAGCCGGCGACGACGGCGTCGTTCTCGAGAGCACACAGGAGGATGCCGTCACACGCGATGACGCCGATCCACTGGAT
AGCCGTGAGGCGTTGGAGCAACGTGAGATGCCGGACGAGCTGCCGCTAGATGCCAGCTGGGACGAGATCTATACCGCTGG
CACCCCCTCTGGCACGGGAACGGACTATCATGACGACGAGTTACCCGTATTTCAGGGAGAGACGACCCAAACGCTGCAGG
ACTATCTGATGTGGCAGGTCGAACTGACCCCCTTCAGTGATACCGATCTGGCCATCGCTACCGCCATCGTCGATGCCGTC
GACGATACCGGCTATCTCAGCGCCTCGTTGGAGGAGATCCTCGAGAGTCTGGGGGATGATCGCGTCCTACCGGAAGAGAT
CGAGGCCGTCCTCAAGCGCATCCAACGTTTTGACCCGGTCGGTGTCGCCGCGCGTGATCTGCGCGACTGCCTACTGGTCC
AGCTCTCGCAATTCGCCGACGACACCCCCTATCTCAACGAGGCTCGTAGCATCGTCGATCGCCACCTCGATCTGTTGGGT
AATCACGATTTCCGAAATCTGATGCGTTCGACTAAGCTAAAAGAAGAGGTGCTCAAGGCGGCGATGCAACTGATTCAGAG
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, 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

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

45.56

100

0.483