Detailed information    

insolico Bioinformatically predicted

Overview

Name   rpoN/rpoN1   Type   Machinery gene
Locus tag   AB3N48_RS02560 Genome accession   NZ_CP162198
Coordinates   528505..529938 (-) Length   477 a.a.
NCBI ID   WP_000809057.1    Uniprot ID   P24255
Organism   Escherichia coli strain STK39-3-E     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 523505..534938
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  AB3N48_RS02525 (AB3N48_02510) elbB 524196..524849 (+) 654 WP_001300411.1 isoprenoid biosynthesis glyoxalase ElbB -
  AB3N48_RS02530 (AB3N48_02515) mtgA 524846..525574 (+) 729 WP_000047091.1 monofunctional biosynthetic peptidoglycan transglycosylase -
  AB3N48_RS02535 (AB3N48_02520) yrbL 525571..526203 (-) 633 WP_000620405.1 PhoP regulatory network protein YrbL -
  AB3N48_RS02540 (AB3N48_02525) npr 526417..526689 (-) 273 WP_000216791.1 PTS phosphocarrier protein NPr -
  AB3N48_RS02545 (AB3N48_02530) rapZ 526686..527540 (-) 855 WP_000243741.1 RNase adapter RapZ -
  AB3N48_RS02550 (AB3N48_02535) ptsN 527586..528077 (-) 492 WP_000183676.1 PTS IIA-like nitrogen regulatory protein PtsN -
  AB3N48_RS02555 (AB3N48_02540) hpf 528195..528482 (-) 288 WP_001176599.1 ribosome hibernation promoting factor -
  AB3N48_RS02560 (AB3N48_02545) rpoN/rpoN1 528505..529938 (-) 1434 WP_000809057.1 RNA polymerase factor sigma-54 Machinery gene
  AB3N48_RS02565 (AB3N48_02550) lptB 529986..530711 (-) 726 WP_000224099.1 LPS export ABC transporter ATP-binding protein -
  AB3N48_RS02570 (AB3N48_02555) lptA 530718..531275 (-) 558 WP_000669785.1 lipopolysaccharide ABC transporter substrate-binding protein LptA -
  AB3N48_RS02575 (AB3N48_02560) lptC 531244..531819 (-) 576 WP_000030537.1 LPS export ABC transporter periplasmic protein LptC -
  AB3N48_RS02580 (AB3N48_02565) kdsC 531816..532382 (-) 567 WP_000030005.1 3-deoxy-manno-octulosonate-8-phosphatase KdsC -
  AB3N48_RS02585 (AB3N48_02570) kdsD 532403..533389 (-) 987 WP_001295557.1 arabinose-5-phosphate isomerase KdsD -
  AB3N48_RS02590 (AB3N48_02575) yrbG 533403..534380 (-) 978 WP_000922901.1 calcium/sodium antiporter -

Sequence

Protein


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

>NTDB_id=920636 AB3N48_RS02560 WP_000809057.1 528505..529938(-) (rpoN/rpoN1) [Escherichia coli strain STK39-3-E]
MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRETQDSETLDTADALEQKEMPE
ELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLED
ILESIGDEEIDIDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTR
LKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQINQHYASMCNNARNDGDSQFIR
SNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELK
YFFSSHVNTEGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQLV

Nucleotide


Download         Length: 1434 bp        

>NTDB_id=920636 AB3N48_RS02560 WP_000809057.1 528505..529938(-) (rpoN/rpoN1) [Escherichia coli strain STK39-3-E]
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