Detailed information    

insolico Bioinformatically predicted

Overview

Name   rpoN/rpoN1   Type   Machinery gene
Locus tag   LF925_RS01525 Genome accession   NZ_CP162669
Coordinates   337148..338581 (-) Length   477 a.a.
NCBI ID   WP_226066946.1    Uniprot ID   -
Organism   Dickeya zeae strain A661-S21-A17     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 332148..343581
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  LF925_RS01490 (LF925_001490) yjgA 332247..332795 (-) 549 WP_012883027.1 ribosome biogenesis factor YjgA -
  LF925_RS01495 (LF925_001495) pmbA 332986..334326 (+) 1341 WP_226066948.1 metalloprotease PmbA -
  LF925_RS01500 (LF925_001500) rnk 334389..334799 (-) 411 WP_019843561.1 nucleoside diphosphate kinase regulator -
  LF925_RS01505 (LF925_001505) npr 334990..335262 (-) 273 WP_019843562.1 PTS phosphocarrier protein NPr -
  LF925_RS01510 (LF925_001510) rapZ 335259..336113 (-) 855 WP_012883031.1 RNase adapter RapZ -
  LF925_RS01515 (LF925_001515) ptsN 336251..336742 (-) 492 WP_016943107.1 PTS IIA-like nitrogen regulatory protein PtsN -
  LF925_RS01520 (LF925_001520) hpf 336836..337123 (-) 288 WP_012883033.1 ribosome hibernation promoting factor -
  LF925_RS01525 (LF925_001525) rpoN/rpoN1 337148..338581 (-) 1434 WP_226066946.1 RNA polymerase factor sigma-54 Machinery gene
  LF925_RS01530 (LF925_001530) lptB 338630..339355 (-) 726 WP_016943103.1 LPS export ABC transporter ATP-binding protein -
  LF925_RS01535 (LF925_001535) lptA 339371..339949 (-) 579 WP_019843564.1 lipopolysaccharide ABC transporter substrate-binding protein LptA -
  LF925_RS01540 (LF925_001540) lptC 339927..340496 (-) 570 WP_226066944.1 LPS export ABC transporter periplasmic protein LptC -
  LF925_RS01545 (LF925_001545) kdsC 340493..341059 (-) 567 WP_012883038.1 3-deoxy-manno-octulosonate-8-phosphatase KdsC -
  LF925_RS01550 (LF925_001550) kdsD 341117..342103 (-) 987 WP_023638712.1 arabinose-5-phosphate isomerase KdsD -
  LF925_RS01555 (LF925_001555) - 342134..343096 (-) 963 WP_038903080.1 calcium/sodium antiporter -

Sequence

Protein


Download         Length: 477 a.a.        Molecular weight: 53688.48 Da        Isoelectric Point: 4.4289

>NTDB_id=1027811 LF925_RS01525 WP_226066946.1 337148..338581(-) (rpoN/rpoN1) [Dickeya zeae strain A661-S21-A17]
MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQEIQQALESNPLLEQADIHDEIETQEISDSEALDTREALEQKEMPD
ELPLDAAWDEIYTAGTPSGTSTDYRDEELPVYQGETTQTLQDYLMWQVELTPFSDTDAAIATSIVDAVDNTGYLTVSLDD
IRESIGNEEVTLEEVEAVLKRVQRFDPVGVAARDLRECLLVQLSQFSSDIPRLSEARLIVSDYLDLLANHDFRTLIRASR
LKEDVLKEALALIQSLDPRPGQSINTGESEYVIPDVLVRKVQGHWMVELNTDSVPRLQINQQYAALGNSARNDSDGQFIR
SHLQEARWLIKSLESRNDTLLKVTRCIVEQQQAFFEHGEEFMKPMVLADIAQAVDMHESTISRVTTQKFLHSPRGIFELK
YFFSSHVNTDSGGEASSTAIRALVKKLIAAENPAKPLSDSKLTTLLSEQGIIVARRTVAKYRESLSIPPSNQRKQLV

Nucleotide


Download         Length: 1434 bp        

>NTDB_id=1027811 LF925_RS01525 WP_226066946.1 337148..338581(-) (rpoN/rpoN1) [Dickeya zeae strain A661-S21-A17]
ATGAAGCAAGGTTTGCAACTCAGGCTCAGCCAGCAACTGGCTATGACACCGCAGTTACAGCAGGCCATCCGCCTGCTGCA
GTTGTCCACGCTTGAACTCCAGCAGGAAATCCAACAGGCGCTGGAAAGCAACCCGTTGCTGGAGCAGGCCGATATTCATG
ACGAAATAGAAACCCAGGAAATCAGCGATAGCGAAGCGTTGGACACCCGCGAGGCGCTGGAGCAAAAAGAGATGCCCGAC
GAGTTACCGCTCGACGCCGCCTGGGATGAAATCTACACCGCCGGTACACCTTCCGGTACCAGCACCGACTACCGTGATGA
GGAATTACCGGTCTATCAGGGTGAAACCACGCAGACACTGCAGGATTACCTGATGTGGCAGGTGGAGTTGACGCCGTTTT
CCGATACCGATGCCGCGATTGCCACGTCCATCGTCGATGCGGTGGACAACACCGGTTACCTGACGGTATCGCTGGATGAC
ATCCGTGAGAGCATCGGCAATGAAGAGGTGACGCTGGAAGAAGTGGAGGCGGTGCTCAAACGTGTGCAACGTTTTGACCC
TGTCGGCGTGGCCGCCCGCGATTTGCGCGAATGTCTGCTGGTACAGCTATCGCAGTTCAGCAGCGACATTCCTCGCCTGA
GCGAAGCCAGGCTGATTGTCAGCGACTATCTTGATTTGCTCGCCAACCATGACTTCCGCACCCTGATCCGCGCCAGTCGC
CTCAAAGAGGACGTATTGAAAGAAGCGTTGGCGCTGATTCAGTCACTGGATCCACGCCCCGGGCAGTCTATCAACACCGG
CGAATCCGAGTATGTCATTCCAGACGTCCTGGTGCGCAAGGTACAAGGCCACTGGATGGTAGAACTCAACACCGACAGCG
TGCCACGGCTGCAAATCAACCAACAGTATGCTGCGCTTGGCAACAGTGCGCGTAACGACAGCGACGGGCAGTTCATTCGC
AGTCATTTGCAGGAAGCGCGCTGGCTCATCAAGAGTCTGGAAAGCCGTAACGATACCCTGTTGAAAGTCACCCGTTGCAT
TGTGGAGCAACAACAGGCGTTCTTCGAACACGGTGAAGAATTTATGAAACCCATGGTGCTGGCGGATATCGCTCAGGCCG
TGGATATGCATGAGTCCACCATTTCCCGCGTGACAACCCAGAAATTTTTGCACAGTCCGCGTGGTATTTTTGAGCTGAAG
TATTTCTTTTCCAGCCACGTCAATACAGACAGCGGCGGCGAGGCATCGTCCACCGCTATCCGTGCGCTGGTGAAAAAACT
CATTGCAGCGGAAAATCCCGCTAAACCGCTGAGCGACAGCAAGCTGACCACTCTGCTTTCCGAACAGGGAATCATTGTGG
CCCGCCGTACTGTCGCCAAGTATCGAGAGTCTTTATCTATCCCGCCGTCAAACCAACGCAAACAGCTGGTTTGA

Domains

Predicted by InterproScan.

Sigma-54 factor, core binding domain (Sigma54_CBD)

(116-303)

Sigma-54 factor, Activator interacting domain (AID) (Sigma54_AID)

(5-48)

Sigma-54, DNA binding domain (Sigma54_DBD)

(317-475)


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

45.527

100

0.48

Multiple sequence alignment