Detailed information    

insolico Bioinformatically predicted

Overview

Name   rpoN/rpoN1   Type   Machinery gene
Locus tag   R4248_RS20540 Genome accession   NZ_CP136993
Coordinates   4219553..4220986 (-) Length   477 a.a.
NCBI ID   WP_000809057.1    Uniprot ID   P24255
Organism   Escherichia coli strain HH35     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 4214553..4225986
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  R4248_RS20505 (R4248_20505) elbB 4215244..4215897 (+) 654 WP_001300411.1 isoprenoid biosynthesis glyoxalase ElbB -
  R4248_RS20510 (R4248_20510) mtgA 4215894..4216622 (+) 729 WP_000047091.1 monofunctional biosynthetic peptidoglycan transglycosylase -
  R4248_RS20515 (R4248_20515) yrbL 4216619..4217251 (-) 633 WP_000620405.1 PhoP regulatory network protein YrbL -
  R4248_RS20520 (R4248_20520) npr 4217465..4217737 (-) 273 WP_000216791.1 PTS phosphocarrier protein NPr -
  R4248_RS20525 (R4248_20525) rapZ 4217734..4218588 (-) 855 WP_000243741.1 RNase adapter RapZ -
  R4248_RS20530 (R4248_20530) ptsN 4218634..4219125 (-) 492 WP_000183676.1 PTS IIA-like nitrogen regulatory protein PtsN -
  R4248_RS20535 (R4248_20535) hpf 4219243..4219530 (-) 288 WP_001176599.1 ribosome hibernation promoting factor -
  R4248_RS20540 (R4248_20540) rpoN/rpoN1 4219553..4220986 (-) 1434 WP_000809057.1 RNA polymerase factor sigma-54 Machinery gene
  R4248_RS20545 (R4248_20545) lptB 4221034..4221759 (-) 726 WP_000224099.1 LPS export ABC transporter ATP-binding protein -
  R4248_RS20550 (R4248_20550) lptA 4221766..4222323 (-) 558 WP_000669785.1 lipopolysaccharide ABC transporter substrate-binding protein LptA -
  R4248_RS20555 (R4248_20555) lptC 4222292..4222867 (-) 576 WP_000030537.1 LPS export ABC transporter periplasmic protein LptC -
  R4248_RS20560 (R4248_20560) kdsC 4222864..4223430 (-) 567 WP_000030005.1 3-deoxy-manno-octulosonate-8-phosphatase KdsC -
  R4248_RS20565 (R4248_20565) kdsD 4223451..4224437 (-) 987 WP_001295557.1 arabinose-5-phosphate isomerase KdsD -
  R4248_RS20570 (R4248_20570) yrbG 4224451..4225428 (-) 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=817494 R4248_RS20540 WP_000809057.1 4219553..4220986(-) (rpoN/rpoN1) [Escherichia coli strain HH35]
MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRETQDSETLDTADALEQKEMPE
ELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLED
ILESIGDEEIDIDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTR
LKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQINQHYASMCNNARNDGDSQFIR
SNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELK
YFFSSHVNTEGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQLV

Nucleotide


Download         Length: 1434 bp        

>NTDB_id=817494 R4248_RS20540 WP_000809057.1 4219553..4220986(-) (rpoN/rpoN1) [Escherichia coli strain HH35]
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