Detailed information    

insolico Bioinformatically predicted

Overview

Name   rpoN/rpoN1   Type   Machinery gene
Locus tag   NMD87_RS13935 Genome accession   NZ_CP100793
Coordinates   3027356..3028825 (+) Length   489 a.a.
NCBI ID   WP_370553739.1    Uniprot ID   -
Organism   Edwardsiella tarda strain GT107     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 3022356..3033825
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  NMD87_RS13905 (NMD87_13885) - 3022786..3023775 (+) 990 WP_078000403.1 calcium/sodium antiporter -
  NMD87_RS13910 (NMD87_13890) kdsD 3023828..3024814 (+) 987 WP_078000404.1 arabinose-5-phosphate isomerase KdsD -
  NMD87_RS13915 (NMD87_13895) kdsC 3024830..3025396 (+) 567 WP_078000405.1 3-deoxy-manno-octulosonate-8-phosphatase KdsC -
  NMD87_RS13920 (NMD87_13900) lptC 3025393..3025965 (+) 573 WP_035604656.1 LPS export ABC transporter periplasmic protein LptC -
  NMD87_RS13925 (NMD87_13905) lptA 3025940..3026497 (+) 558 WP_005281704.1 lipopolysaccharide ABC transporter substrate-binding protein LptA -
  NMD87_RS13930 (NMD87_13910) lptB 3026504..3027229 (+) 726 WP_005281703.1 LPS export ABC transporter ATP-binding protein -
  NMD87_RS13935 (NMD87_13915) rpoN/rpoN1 3027356..3028825 (+) 1470 WP_370553739.1 RNA polymerase factor sigma-54 Machinery gene
  NMD87_RS13940 (NMD87_13920) hpf 3028847..3029134 (+) 288 WP_370560386.1 ribosome hibernation promoting factor -
  NMD87_RS13945 (NMD87_13925) ptsN 3029251..3029715 (+) 465 WP_005281697.1 PTS IIA-like nitrogen regulatory protein PtsN -
  NMD87_RS13950 (NMD87_13930) rapZ 3029823..3030674 (+) 852 WP_005281696.1 RNase adapter RapZ -
  NMD87_RS13955 (NMD87_13935) npr 3030682..3030954 (+) 273 WP_005281695.1 PTS phosphocarrier protein NPr -
  NMD87_RS13960 (NMD87_13940) rnk 3031131..3031541 (+) 411 WP_370558878.1 nucleoside diphosphate kinase regulator -
  NMD87_RS13965 (NMD87_13945) - 3031577..3032080 (-) 504 WP_035604652.1 cytochrome b/b6 domain-containing protein -
  NMD87_RS13970 (NMD87_13950) cybC 3032086..3032472 (-) 387 WP_035604649.1 cytochrome b562 -
  NMD87_RS13975 (NMD87_13955) deoD 3032686..3033411 (-) 726 WP_005281692.1 purine-nucleoside phosphorylase -

Sequence

Protein


Download         Length: 489 a.a.        Molecular weight: 55017.87 Da        Isoelectric Point: 4.4249

>NTDB_id=706986 NMD87_RS13935 WP_370553739.1 3027356..3028825(+) (rpoN/rpoN1) [Edwardsiella tarda strain GT107]
MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQEIQQALESNPLLEQLDPNEEAGDDGVVRENTQEDVVTRDDADPLD
SREALEQREMPDELPLDASWDEIYTAGTPSGTGTDYHDDELPVFQGETTQTLQDYLMWQVELTPFSDTDLAIATAIVDAV
DDTGYLSASLAEILESLGDDRVLPEEIEAVLKRIQRFDPVGVAARDLRDCLLVQLSQFADDTPYLNEARSIVDRHLDLLG
NHDFRNLMRSTKLKEEVLKAAMQLIQSLDPRPGLSINTGESDYVIPDVLVHKHQERWVVELNQDSVPRLRINQHYAALGT
QARNDSDSQFIRSNLQEAKWLIKSLESRNDTLLKVSRCIVEQQQAFFEHGPEAMKPMVLADIAQQVEMHESTISRVTTQK
FLHSPRGIFELKYFFSSHVSTEDGGEASSTAIRALVKKLIAAENPAKPLSDSKLTTLLADQGIMVARRTVAKYRESLSIP
PSNQRKQLV

Nucleotide


Download         Length: 1470 bp        

>NTDB_id=706986 NMD87_RS13935 WP_370553739.1 3027356..3028825(+) (rpoN/rpoN1) [Edwardsiella tarda strain GT107]
ATGAAGCAAGGCTTGCAACTCAGACTCAGCCAGCAGTTGGCCATGACGCCCCAACTGCAACAGGCCATTCGCCTGTTGCA
GCTCTCGACGCTGGAGTTACAGCAAGAGATCCAGCAGGCGTTGGAAAGCAATCCTCTGCTGGAACAACTGGATCCCAATG
AGGAAGCCGGCGACGACGGCGTCGTTCGCGAGAATACACAGGAGGATGTCGTCACACGCGATGATGCCGATCCACTGGAT
AGCCGCGAGGCGTTGGAGCAACGTGAGATGCCGGACGAGCTGCCGCTGGATGCCAGCTGGGACGAGATCTATACCGCTGG
CACCCCCTCAGGCACGGGAACGGATTATCATGACGACGAGTTACCCGTGTTTCAGGGAGAGACGACCCAAACGCTGCAGG
ACTATCTGATGTGGCAGGTCGAACTGACCCCCTTCAGTGATACCGATCTGGCCATCGCTACCGCCATCGTCGATGCCGTC
GACGATACCGGCTATCTCAGCGCTTCGTTGGCGGAGATCCTCGAGAGTCTAGGGGACGATCGCGTCCTACCGGAAGAGAT
CGAGGCCGTCCTCAAGCGCATCCAACGTTTTGATCCGGTCGGTGTCGCCGCGCGTGATCTGCGCGACTGCCTACTGGTCC
AGCTCTCGCAATTCGCCGACGACACGCCCTATCTCAACGAGGCTCGTAGCATCGTCGATCGCCACCTCGATCTGTTGGGT
AATCACGATTTCCGAAATCTGATGCGTTCGACTAAGCTAAAAGAAGAGGTGCTCAAGGCGGCGATGCAACTGATCCAGAG
CCTCGACCCGCGGCCAGGACTCTCCATCAATACCGGCGAGTCTGACTACGTCATCCCCGACGTGCTGGTGCATAAACATC
AGGAGCGCTGGGTGGTTGAGCTCAATCAGGACAGCGTCCCGCGCCTGCGTATCAACCAACATTACGCCGCGCTGGGCACT
CAGGCGCGTAACGACAGCGACAGCCAGTTCATTCGCAGCAATCTGCAAGAAGCGAAGTGGCTGATCAAGAGCCTAGAGAG
CCGTAACGATACCCTGCTGAAGGTATCGCGTTGCATCGTAGAGCAGCAGCAAGCGTTCTTCGAGCACGGGCCGGAGGCGA
TGAAGCCGATGGTGCTGGCAGATATCGCTCAGCAAGTCGAAATGCACGAATCGACGATCTCACGTGTGACTACGCAGAAG
TTTCTGCACAGCCCGCGTGGAATCTTTGAACTGAAATATTTCTTCTCCAGCCATGTCAGCACCGAGGACGGCGGCGAGGC
CTCCTCCACGGCCATCCGGGCGCTGGTGAAGAAACTGATCGCGGCAGAAAATCCGGCGAAACCGCTGAGTGATAGCAAAC
TTACCACTCTATTGGCGGATCAGGGTATCATGGTCGCCCGGCGTACTGTCGCAAAATACCGAGAGTCTTTGTCCATTCCA
CCGTCCAATCAGCGTAAACAGCTGGTGTGA

Domains

Predicted by InterproScan.

Sigma-54 factor, core binding domain (Sigma54_CBD)

(128-315)

Sigma-54, DNA binding domain (Sigma54_DBD)

(329-487)

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

45.367

100

0.481