Detailed information    

insolico Bioinformatically predicted

Overview

Name   rpoN/rpoN1   Type   Machinery gene
Locus tag   PIC78_RS20235 Genome accession   NZ_CP116094
Coordinates   4174921..4176354 (+) Length   477 a.a.
NCBI ID   WP_000809057.1    Uniprot ID   P24255
Organism   Escherichia coli strain DETEC-S560     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 4169921..4181354
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  PIC78_RS20205 (PIC78_20200) yrbG 4170479..4171456 (+) 978 WP_000922901.1 calcium/sodium antiporter -
  PIC78_RS20210 (PIC78_20205) kdsD 4171470..4172456 (+) 987 WP_001295557.1 arabinose-5-phosphate isomerase KdsD -
  PIC78_RS20215 (PIC78_20210) kdsC 4172477..4173043 (+) 567 WP_000030005.1 3-deoxy-manno-octulosonate-8-phosphatase KdsC -
  PIC78_RS20220 (PIC78_20215) lptC 4173040..4173615 (+) 576 WP_000030537.1 LPS export ABC transporter periplasmic protein LptC -
  PIC78_RS20225 (PIC78_20220) lptA 4173584..4174141 (+) 558 WP_000669785.1 lipopolysaccharide ABC transporter substrate-binding protein LptA -
  PIC78_RS20230 (PIC78_20225) lptB 4174148..4174873 (+) 726 WP_000224099.1 LPS export ABC transporter ATP-binding protein -
  PIC78_RS20235 (PIC78_20230) rpoN/rpoN1 4174921..4176354 (+) 1434 WP_000809057.1 RNA polymerase factor sigma-54 Machinery gene
  PIC78_RS20240 (PIC78_20235) hpf 4176377..4176664 (+) 288 WP_001176599.1 ribosome hibernation promoting factor -
  PIC78_RS20245 (PIC78_20240) ptsN 4176782..4177273 (+) 492 WP_000183676.1 PTS IIA-like nitrogen regulatory protein PtsN -
  PIC78_RS20250 (PIC78_20245) rapZ 4177319..4178173 (+) 855 WP_000243741.1 RNase adapter RapZ -
  PIC78_RS20255 (PIC78_20250) npr 4178170..4178442 (+) 273 WP_000216791.1 PTS phosphocarrier protein NPr -
  PIC78_RS20260 (PIC78_20255) yrbL 4178656..4179288 (+) 633 WP_000620405.1 PhoP regulatory network protein YrbL -
  PIC78_RS20265 (PIC78_20260) mtgA 4179285..4180013 (-) 729 WP_000047091.1 monofunctional biosynthetic peptidoglycan transglycosylase -
  PIC78_RS20270 (PIC78_20265) elbB 4180010..4180663 (-) 654 WP_001300411.1 isoprenoid biosynthesis glyoxalase ElbB -

Sequence

Protein


Download         Length: 477 a.a.        Molecular weight: 53989.78 Da        Isoelectric Point: 4.3663

>NTDB_id=707700 PIC78_RS20235 WP_000809057.1 4174921..4176354(+) (rpoN/rpoN1) [Escherichia coli strain DETEC-S560]
MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRETQDSETLDTADALEQKEMPE
ELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLED
ILESIGDEEIDIDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTR
LKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQINQHYASMCNNARNDGDSQFIR
SNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELK
YFFSSHVNTEGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQLV

Nucleotide


Download         Length: 1434 bp        

>NTDB_id=707700 PIC78_RS20235 WP_000809057.1 4174921..4176354(+) (rpoN/rpoN1) [Escherichia coli strain DETEC-S560]
ATGAAGCAAGGTTTGCAACTCAGGCTTAGCCAACAACTGGCGATGACGCCACAGCTCCAACAGGCAATTCGTCTGTTGCA
GTTGTCGACGCTGGAACTTCAGCAGGAGCTACAGCAGGCGCTGGAGAGTAATCCGCTGCTTGAGCAAATCGACACTCATG
AAGAAATCGACACCCGCGAAACGCAAGACAGTGAAACGCTGGACACCGCCGACGCGCTCGAACAAAAAGAGATGCCGGAA
GAGCTGCCGCTCGATGCCAGTTGGGACACCATTTACACCGCTGGTACACCATCCGGCACCAGCGGTGACTACATTGACGA
CGAGCTGCCGGTCTACCAGGGCGAAACGACGCAGACCTTGCAGGATTACCTGATGTGGCAGGTTGAGCTGACACCGTTTT
CCGACACTGACCGCGCTATTGCTACCTCTATCGTCGATGCCGTTGATGAAACCGGTTATCTGACTGTCCCGCTGGAAGAT
ATTCTCGAAAGTATAGGCGATGAAGAGATCGACATCGACGAAGTTGAAGCCGTCCTTAAGCGGATCCAACGGTTTGATCC
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 factor, core binding domain (Sigma54_CBD)

(116-303)

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
  PDB 2MT3
  PDB 8F1I
  PDB 8F1J
  PDB 8F1K
  PDB 9MSE
  PDB 9MSF
  PDB 9MSG
  PDB 9MSH
  PDB 9MSJ

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

44.024

100

0.463