Detailed information    

insolico Bioinformatically predicted

Overview

Name   rpoN/rpoN1   Type   Machinery gene
Locus tag   NMD62_RS13665 Genome accession   NZ_CP100874
Coordinates   2980875..2982344 (+) Length   489 a.a.
NCBI ID   WP_005281701.1    Uniprot ID   D4F169
Organism   Edwardsiella tarda strain GT5     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 2975875..2987344
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  NMD62_RS13635 (NMD62_13640) - 2976305..2977294 (+) 990 WP_005281708.1 calcium/sodium antiporter -
  NMD62_RS13640 (NMD62_13645) kdsD 2977347..2978333 (+) 987 WP_005281707.1 arabinose-5-phosphate isomerase KdsD -
  NMD62_RS13645 (NMD62_13650) kdsC 2978349..2978915 (+) 567 WP_005297337.1 3-deoxy-manno-octulosonate-8-phosphatase KdsC -
  NMD62_RS13650 (NMD62_13655) lptC 2978912..2979484 (+) 573 WP_005281705.1 LPS export ABC transporter periplasmic protein LptC -
  NMD62_RS13655 (NMD62_13660) lptA 2979459..2980016 (+) 558 WP_005281704.1 lipopolysaccharide ABC transporter substrate-binding protein LptA -
  NMD62_RS13660 (NMD62_13665) lptB 2980023..2980748 (+) 726 WP_370546990.1 LPS export ABC transporter ATP-binding protein -
  NMD62_RS13665 (NMD62_13670) rpoN/rpoN1 2980875..2982344 (+) 1470 WP_005281701.1 RNA polymerase factor sigma-54 Machinery gene
  NMD62_RS13670 (NMD62_13675) hpf 2982366..2982653 (+) 288 WP_024524583.1 ribosome hibernation promoting factor -
  NMD62_RS13675 (NMD62_13680) ptsN 2982788..2983234 (+) 447 WP_005297331.1 PTS IIA-like nitrogen regulatory protein PtsN -
  NMD62_RS13680 (NMD62_13685) rapZ 2983342..2984193 (+) 852 WP_005281696.1 RNase adapter RapZ -
  NMD62_RS13685 (NMD62_13690) npr 2984201..2984473 (+) 273 WP_005281695.1 PTS phosphocarrier protein NPr -
  NMD62_RS13690 (NMD62_13695) rnk 2984650..2985060 (+) 411 WP_035597411.1 nucleoside diphosphate kinase regulator -
  NMD62_RS13695 (NMD62_13700) - 2985091..2985606 (-) 516 WP_370546991.1 cytochrome b/b6 domain-containing protein -
  NMD62_RS13700 (NMD62_13705) cybC 2985612..2985998 (-) 387 WP_005291336.1 cytochrome b562 -
  NMD62_RS13705 (NMD62_13710) deoD 2986212..2986937 (-) 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=707410 NMD62_RS13665 WP_005281701.1 2980875..2982344(+) (rpoN/rpoN1) [Edwardsiella tarda strain GT5]
MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQEIQQALESNPLLEQLDPNEEAGDDGVVRENTQEDVVTRDDADPLD
SREALEQREMPDELPLDASWDEIYTAGTPSGTGTDYHDDELPVFQGETTQTLQDYLMWQVELTPFSDTDLAIATAIVDAV
DDTGYLSASLEEILESLGDDRVLPEEIEAVLKRIQRFDPVGVAARDLRDCLLVQLSQFADDTPYLNEARSIVDRHLDLLG
NHDFRNLMRSTKLKEEVLKAAMQLIQSLDPRPGLSINTGESDYVIPDVLVHKHQERWVVELNQDSVPRLRINQHYAALGT
QARNDSDSQFIRSNLQEAKWLIKSLESRNDTLLKVSRCIVEQQQAFFEHGPEAMKPMVLADIAQQVEMHESTISRVTTQK
FLHSPRGIFELKYFFSSHVSTEDGGEASSTAIRALVKKLIAAENPAKPLSDSKLTTLLADQGIMVARRTVAKYRESLSIP
PSNQRKQLV

Nucleotide


Download         Length: 1470 bp        

>NTDB_id=707410 NMD62_RS13665 WP_005281701.1 2980875..2982344(+) (rpoN/rpoN1) [Edwardsiella tarda strain GT5]
ATGAAGCAAGGCTTGCAACTCAGACTCAGCCAGCAGTTGGCCATGACGCCCCAACTGCAACAGGCCATTCGCCTGTTGCA
GCTCTCGACGCTGGAGTTACAGCAAGAAATCCAGCAGGCGTTGGAAAGCAATCCTCTGCTGGAACAACTGGATCCCAATG
AGGAAGCCGGCGACGACGGCGTCGTTCGCGAGAATACACAGGAGGATGTCGTCACACGCGATGATGCCGATCCACTGGAT
AGCCGCGAGGCGTTGGAGCAACGTGAGATGCCGGACGAGCTGCCGCTGGATGCCAGCTGGGACGAGATCTATACCGCTGG
CACCCCCTCAGGCACGGGAACGGATTATCATGACGACGAGTTACCCGTGTTTCAGGGAGAGACGACCCAAACGCTGCAGG
ACTATCTGATGTGGCAGGTCGAACTGACCCCCTTCAGTGATACCGATCTGGCCATCGCGACCGCCATCGTCGATGCCGTC
GACGATACCGGCTATCTCAGCGCCTCGTTGGAGGAGATCCTCGAGAGTCTAGGGGACGATCGCGTCCTACCGGAAGAGAT
CGAGGCCGTCCTCAAGCGCATCCAACGTTTTGATCCGGTCGGTGTCGCCGCGCGTGATCTGCGCGACTGCCTACTGGTCC
AGCTCTCGCAATTCGCCGACGACACGCCCTATCTCAACGAGGCTCGTAGCATCGTCGATCGCCACCTCGATCTGTTGGGT
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