Detailed information    

insolico Bioinformatically predicted

Overview

Name   rpoN/rpoN1   Type   Machinery gene
Locus tag   WHU21_RS08435 Genome accession   NZ_CP148378
Coordinates   1709842..1711275 (-) Length   477 a.a.
NCBI ID   WP_000809051.1    Uniprot ID   A0A0H2VDV8
Organism   Escherichia coli strain Z1323HEC0067     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 1704842..1716275
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  WHU21_RS08400 (WHU21_08405) elbB 1705534..1706187 (+) 654 WP_000719789.1 isoprenoid biosynthesis glyoxalase ElbB -
  WHU21_RS08405 (WHU21_08410) mtgA 1706184..1706912 (+) 729 WP_000047069.1 monofunctional biosynthetic peptidoglycan transglycosylase -
  WHU21_RS08410 (WHU21_08415) yrbL 1706909..1707541 (-) 633 WP_000620407.1 PhoP regulatory network protein YrbL -
  WHU21_RS08415 (WHU21_08420) npr 1707754..1708026 (-) 273 WP_000216791.1 PTS phosphocarrier protein NPr -
  WHU21_RS08420 (WHU21_08425) rapZ 1708023..1708877 (-) 855 WP_000243741.1 RNase adapter RapZ -
  WHU21_RS08425 (WHU21_08430) ptsN 1708923..1709414 (-) 492 WP_000183674.1 PTS IIA-like nitrogen regulatory protein PtsN -
  WHU21_RS08430 (WHU21_08435) hpf 1709532..1709819 (-) 288 WP_024224896.1 ribosome hibernation promoting factor -
  WHU21_RS08435 (WHU21_08440) rpoN/rpoN1 1709842..1711275 (-) 1434 WP_000809051.1 RNA polymerase factor sigma-54 Machinery gene
  WHU21_RS08440 (WHU21_08445) lptB 1711323..1712048 (-) 726 WP_000224099.1 LPS export ABC transporter ATP-binding protein -
  WHU21_RS08445 (WHU21_08450) lptA 1712055..1712612 (-) 558 WP_000669785.1 lipopolysaccharide ABC transporter substrate-binding protein LptA -
  WHU21_RS08450 (WHU21_08455) lptC 1712581..1713156 (-) 576 WP_000030537.1 LPS export ABC transporter periplasmic protein LptC -
  WHU21_RS08455 (WHU21_08460) kdsC 1713153..1713719 (-) 567 WP_000030016.1 3-deoxy-manno-octulosonate-8-phosphatase KdsC -
  WHU21_RS08460 (WHU21_08465) kdsD 1713740..1714726 (-) 987 WP_001295557.1 arabinose-5-phosphate isomerase KdsD -
  WHU21_RS08465 (WHU21_08470) yrbG 1714740..1715717 (-) 978 WP_000922880.1 calcium/sodium antiporter -

Sequence

Protein


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

>NTDB_id=870965 WHU21_RS08435 WP_000809051.1 1709842..1711275(-) (rpoN/rpoN1) [Escherichia coli strain Z1323HEC0067]
MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRETQDSETLDTADALEQKEMPE
ELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQDYLMWQVELTPFSDTDRAIATSIVDAVDDTGYLTVPLED
ILESMGDEEIDIDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTR
LKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQINQHYASMCNNARNDGDSQFIR
SNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELK
YFFSSHVNTEGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQLV

Nucleotide


Download         Length: 1434 bp        

>NTDB_id=870965 WHU21_RS08435 WP_000809051.1 1709842..1711275(-) (rpoN/rpoN1) [Escherichia coli strain Z1323HEC0067]
ATGAAGCAAGGTTTGCAACTCAGGCTTAGCCAACAACTGGCGATGACGCCACAGCTCCAACAGGCAATTCGTCTGTTGCA
GTTGTCGACGCTGGAACTTCAGCAGGAGCTACAGCAGGCGCTGGAGAGCAATCCGCTGCTTGAGCAAATCGACACTCATG
AAGAAATCGACACCCGCGAAACGCAAGACAGTGAAACACTGGACACCGCCGACGCGCTCGAACAAAAAGAGATGCCGGAA
GAGCTGCCGCTCGATGCCAGTTGGGACACCATTTACACCGCTGGTACACCATCCGGCACCAGCGGTGACTACATTGACGA
CGAGCTGCCGGTCTATCAGGGCGAAACGACACAGACCTTACAGGATTACCTGATGTGGCAGGTCGAGTTGACACCGTTTT
CCGACACTGACCGCGCTATTGCTACCTCTATCGTCGATGCCGTTGATGACACCGGTTATCTGACTGTCCCGCTGGAAGAT
ATTCTCGAAAGTATGGGCGATGAAGAGATTGACATCGACGAAGTTGAAGCCGTCCTTAAGCGGATCCAACGGTTTGATCC
AGTCGGTGTGGCGGCAAAAGATCTGCGTGACTGCCTGCTGATCCAACTCTCCCAATTCGATAAGACCACGCCATGGCTGG
AAGAGGCAAGACTGATCATTAGCGATCATCTCGATCTATTAGCCAATCATGACTTCCGCACTTTAATGCGCGTCACGCGT
CTGAAAGAAGATGTGCTGAAAGAAGCCGTCAATCTGATCCAGTCGCTCGATCCGCGCCCCGGGCAGTCGATCCAGACTGG
CGAACCTGAATATGTCATTCCAGATGTGCTGGTGCGTAAGCATAACGGTCACTGGACGGTAGAACTCAACAGTGACAGCA
TTCCGCGTTTGCAAATCAACCAGCACTACGCCTCGATGTGCAATAACGCGCGCAACGATGGTGATAGCCAGTTTATCCGC
AGCAATCTGCAGGATGCCAAATGGTTGATCAAGAGTCTGGAAAGCCGTAACGATACGCTACTGCGCGTGAGTCGCTGTAT
CGTTGAACAGCAGCAAGCCTTCTTTGAGCAAGGCGAAGAATATATGAAACCGATGGTACTGGCTGATATCGCCCAGGCCG
TCGAGATGCATGAATCGACGATATCTCGCGTGACCACGCAAAAATACCTGCATAGTCCACGAGGCATTTTTGAACTGAAG
TATTTCTTTTCCAGTCACGTCAATACCGAGGGCGGCGGCGAAGCTTCCTCCACGGCGATTCGTGCGCTGGTGAAGAAATT
AATCGCGGCGGAAAACCCAGCGAAACCGTTGAGCGACAGCAAGTTAACCTCTTTGCTGTCGGAACAAGGTATCATGGTGG
CACGCCGCACTGTTGCGAAGTACCGAGAGTCTTTATCCATTCCGCCGTCAAACCAGCGTAAACAGCTCGTTTGA

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