Detailed information    

insolico Bioinformatically predicted

Overview

Name   rpoN/rpoN1   Type   Machinery gene
Locus tag   VYI56_RS02825 Genome accession   NZ_CP142915
Coordinates   579289..580722 (-) Length   477 a.a.
NCBI ID   WP_000809051.1    Uniprot ID   A0A0H2VDV8
Organism   Escherichia coli strain B19374     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 574289..585722
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  VYI56_RS02790 (VYI56_02790) elbB 574980..575633 (+) 654 WP_001300411.1 isoprenoid biosynthesis glyoxalase ElbB -
  VYI56_RS02795 (VYI56_02795) mtgA 575630..576358 (+) 729 WP_000047091.1 monofunctional biosynthetic peptidoglycan transglycosylase -
  VYI56_RS02800 (VYI56_02800) yrbL 576355..576987 (-) 633 WP_000620405.1 PhoP regulatory network protein YrbL -
  VYI56_RS02805 (VYI56_02805) npr 577201..577473 (-) 273 WP_000216791.1 PTS phosphocarrier protein NPr -
  VYI56_RS02810 (VYI56_02810) rapZ 577470..578324 (-) 855 WP_329502232.1 RNase adapter RapZ -
  VYI56_RS02815 (VYI56_02815) ptsN 578370..578861 (-) 492 WP_000183676.1 PTS IIA-like nitrogen regulatory protein PtsN -
  VYI56_RS02820 (VYI56_02820) hpf 578979..579266 (-) 288 WP_001176599.1 ribosome hibernation promoting factor -
  VYI56_RS02825 (VYI56_02825) rpoN/rpoN1 579289..580722 (-) 1434 WP_000809051.1 RNA polymerase factor sigma-54 Machinery gene
  VYI56_RS02830 (VYI56_02830) lptB 580770..581495 (-) 726 WP_000224099.1 LPS export ABC transporter ATP-binding protein -
  VYI56_RS02835 (VYI56_02835) lptA 581502..582059 (-) 558 WP_000669785.1 lipopolysaccharide ABC transporter substrate-binding protein LptA -
  VYI56_RS02840 (VYI56_02840) lptC 582028..582603 (-) 576 WP_000030537.1 LPS export ABC transporter periplasmic protein LptC -
  VYI56_RS02845 (VYI56_02845) kdsC 582600..583166 (-) 567 WP_000030005.1 3-deoxy-manno-octulosonate-8-phosphatase KdsC -
  VYI56_RS02850 (VYI56_02850) kdsD 583187..584173 (-) 987 WP_001295557.1 arabinose-5-phosphate isomerase KdsD -
  VYI56_RS02855 (VYI56_02855) yrbG 584187..585164 (-) 978 WP_000922901.1 calcium/sodium antiporter -

Sequence

Protein


Download         Length: 477 a.a.        Molecular weight: 53993.79 Da        Isoelectric Point: 4.3639

>NTDB_id=842445 VYI56_RS02825 WP_000809051.1 579289..580722(-) (rpoN/rpoN1) [Escherichia coli strain B19374]
MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRETQDSETLDTADALEQKEMPE
ELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQDYLMWQVELTPFSDTDRAIATSIVDAVDDTGYLTVPLED
ILESMGDEEIDIDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTR
LKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQINQHYASMCNNARNDGDSQFIR
SNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELK
YFFSSHVNTEGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQLV

Nucleotide


Download         Length: 1434 bp        

>NTDB_id=842445 VYI56_RS02825 WP_000809051.1 579289..580722(-) (rpoN/rpoN1) [Escherichia coli strain B19374]
ATGAAGCAAGGTTTGCAACTCAGGCTTAGCCAACAACTGGCGATGACGCCACAGCTCCAACAGGCAATTCGTCTGTTGCA
GTTGTCGACGCTGGAACTTCAGCAGGAGCTACAGCAGGCGCTGGAGAGTAATCCGCTGCTTGAGCAAATCGACACTCATG
AAGAAATCGACACCCGCGAAACGCAAGACAGTGAAACGCTGGACACCGCCGACGCGCTCGAACAAAAAGAGATGCCGGAA
GAGCTGCCGCTCGATGCCAGTTGGGACACCATTTACACCGCTGGTACACCATCCGGCACCAGCGGTGACTACATTGACGA
TGAGCTGCCGGTCTATCAGGGCGAAACGACGCAGACCTTGCAGGATTACCTGATGTGGCAGGTCGAGCTGACACCGTTTT
CCGACACTGACCGCGCTATTGCTACCTCTATCGTCGATGCCGTTGATGACACCGGTTATCTGACTGTCCCGCTGGAAGAT
ATTCTCGAAAGTATGGGCGATGAAGAGATCGACATCGACGAGGTTGAAGCCGTCCTTAAGCGGATCCAACGGTTTGATCC
GGTCGGTGTGGCGGCAAAAGATCTGCGTGACTGTCTGCTGATCCAACTCTCCCAATTCGATAAGACCACGCCGTGGCTGG
AAGAGGCCAGACTGATCATTAGCGATCATCTCGATCTGTTAGCCAATCACGACTTCCGCACTTTAATGCGCGTCACGCGT
CTGAAAGAAGATGTGCTGAAAGAAGCCGTCAATCTGATCCAGTCGCTCGATCCGCGCCCCGGGCAGTCGATCCAGACTGG
CGAACCTGAGTATGTCATTCCAGATGTGCTGGTGCGTAAGCATAACGGTCACTGGACGGTAGAACTCAACAGTGACAGCA
TTCCGCGTCTGCAAATCAACCAGCACTACGCCTCGATGTGCAATAACGCGCGCAACGATGGTGACAGCCAGTTTATCCGC
AGCAATCTGCAGGATGCCAAATGGTTGATCAAGAGTCTGGAAAGCCGTAACGATACGCTACTGCGCGTGAGTCGCTGTAT
CGTTGAACAGCAGCAAGCCTTCTTTGAGCAAGGTGAAGAATATATGAAACCGATGGTACTGGCCGATATCGCCCAGGCTG
TCGAAATGCATGAATCGACGATATCTCGCGTGACCACGCAAAAATACCTGCATAGTCCACGAGGCATTTTTGAACTGAAG
TATTTCTTTTCCAGTCACGTCAATACCGAGGGCGGCGGCGAAGCTTCCTCCACGGCGATTCGTGCGCTGGTGAAGAAATT
AATCGCGGCGGAAAACCCAGCGAAACCGTTGAGCGACAGCAAGTTAACCTCTTTGCTGTCGGAACAAGGTATCATGGTGG
CACGCCGCACTGTTGCGAAGTACCGAGAGTCTTTATCCATTCCGCCGTCAAACCAGCGTAAACAACTCGTTTGA

Domains

Predicted by InterProScan.

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

(5-48)

Sigma-54, DNA binding domain (Sigma54_DBD)

(317-475)

Sigma-54 factor, core binding domain (Sigma54_CBD)

(116-303)


Secondary structure

Protein secondary structures were predicted by S4PRED and visualized by seqviz.



3D structure

Source ID Structure
  AlphaFold DB A0A0H2VDV8

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

44.223

100

0.465