Detailed information    

insolico Bioinformatically predicted

Overview

Name   rpoN/rpoN1   Type   Machinery gene
Locus tag   NMD79_RS13485 Genome accession   NZ_CP100822
Coordinates   2937902..2939371 (+) Length   489 a.a.
NCBI ID   WP_005281701.1    Uniprot ID   D4F169
Organism   Edwardsiella tarda strain GT61     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 2932902..2944371
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  NMD79_RS13455 (NMD79_13440) - 2933332..2934321 (+) 990 WP_005281708.1 calcium/sodium antiporter -
  NMD79_RS13460 (NMD79_13445) kdsD 2934374..2935360 (+) 987 WP_047060479.1 arabinose-5-phosphate isomerase KdsD -
  NMD79_RS13465 (NMD79_13450) kdsC 2935376..2935942 (+) 567 WP_005297337.1 3-deoxy-manno-octulosonate-8-phosphatase KdsC -
  NMD79_RS13470 (NMD79_13455) lptC 2935939..2936511 (+) 573 WP_005281705.1 LPS export ABC transporter periplasmic protein LptC -
  NMD79_RS13475 (NMD79_13460) lptA 2936486..2937043 (+) 558 WP_005281704.1 lipopolysaccharide ABC transporter substrate-binding protein LptA -
  NMD79_RS13480 (NMD79_13465) lptB 2937050..2937775 (+) 726 WP_005281703.1 LPS export ABC transporter ATP-binding protein -
  NMD79_RS13485 (NMD79_13470) rpoN/rpoN1 2937902..2939371 (+) 1470 WP_005281701.1 RNA polymerase factor sigma-54 Machinery gene
  NMD79_RS13490 (NMD79_13475) hpf 2939393..2939680 (+) 288 WP_024524583.1 ribosome hibernation promoting factor -
  NMD79_RS13495 (NMD79_13480) ptsN 2939815..2940261 (+) 447 WP_005297331.1 PTS IIA-like nitrogen regulatory protein PtsN -
  NMD79_RS13500 (NMD79_13485) rapZ 2940369..2941220 (+) 852 WP_005281696.1 RNase adapter RapZ -
  NMD79_RS13505 (NMD79_13490) npr 2941228..2941500 (+) 273 WP_005281695.1 PTS phosphocarrier protein NPr -
  NMD79_RS13510 (NMD79_13495) rnk 2941677..2942087 (+) 411 WP_035597411.1 nucleoside diphosphate kinase regulator -
  NMD79_RS13515 (NMD79_13500) - 2942118..2942633 (-) 516 WP_068871247.1 cytochrome b/b6 domain-containing protein -
  NMD79_RS13520 (NMD79_13505) cybC 2942639..2943025 (-) 387 WP_005291336.1 cytochrome b562 -
  NMD79_RS13525 (NMD79_13510) tnpA 2943250..2943687 (-) 438 WP_035598237.1 IS200/IS605 family transposase -

Sequence

Protein


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

>NTDB_id=707130 NMD79_RS13485 WP_005281701.1 2937902..2939371(+) (rpoN/rpoN1) [Edwardsiella tarda strain GT61]
MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQEIQQALESNPLLEQLDPNEEAGDDGVVRENTQEDVVTRDDADPLD
SREALEQREMPDELPLDASWDEIYTAGTPSGTGTDYHDDELPVFQGETTQTLQDYLMWQVELTPFSDTDLAIATAIVDAV
DDTGYLSASLEEILESLGDDRVLPEEIEAVLKRIQRFDPVGVAARDLRDCLLVQLSQFADDTPYLNEARSIVDRHLDLLG
NHDFRNLMRSTKLKEEVLKAAMQLIQSLDPRPGLSINTGESDYVIPDVLVHKHQERWVVELNQDSVPRLRINQHYAALGT
QARNDSDSQFIRSNLQEAKWLIKSLESRNDTLLKVSRCIVEQQQAFFEHGPEAMKPMVLADIAQQVEMHESTISRVTTQK
FLHSPRGIFELKYFFSSHVSTEDGGEASSTAIRALVKKLIAAENPAKPLSDSKLTTLLADQGIMVARRTVAKYRESLSIP
PSNQRKQLV

Nucleotide


Download         Length: 1470 bp        

>NTDB_id=707130 NMD79_RS13485 WP_005281701.1 2937902..2939371(+) (rpoN/rpoN1) [Edwardsiella tarda strain GT61]
ATGAAGCAAGGCTTGCAACTCAGACTCAGCCAGCAGTTGGCCATGACGCCCCAACTGCAACAGGCCATTCGCCTGTTGCA
GCTCTCGACGCTGGAGTTACAGCAAGAGATCCAGCAGGCGTTGGAAAGCAATCCTCTGCTGGAACAACTGGATCCCAATG
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