Detailed information    

insolico Bioinformatically predicted

Overview

Name   rpoN/rpoN1   Type   Machinery gene
Locus tag   WHU60_RS12355 Genome accession   NZ_CP148398
Coordinates   2500628..2502061 (+) Length   477 a.a.
NCBI ID   WP_000809051.1    Uniprot ID   A0A0H2VDV8
Organism   Escherichia coli strain Z1323HEC0009     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 2495628..2507061
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  WHU60_RS12325 (WHU60_12325) yrbG 2496186..2497163 (+) 978 WP_000922872.1 calcium/sodium antiporter -
  WHU60_RS12330 (WHU60_12330) kdsD 2497177..2498163 (+) 987 WP_001295557.1 arabinose-5-phosphate isomerase KdsD -
  WHU60_RS12335 (WHU60_12335) kdsC 2498184..2498750 (+) 567 WP_000030016.1 3-deoxy-manno-octulosonate-8-phosphatase KdsC -
  WHU60_RS12340 (WHU60_12340) lptC 2498747..2499322 (+) 576 WP_000030537.1 LPS export ABC transporter periplasmic protein LptC -
  WHU60_RS12345 (WHU60_12345) lptA 2499291..2499848 (+) 558 WP_000669785.1 lipopolysaccharide ABC transporter substrate-binding protein LptA -
  WHU60_RS12350 (WHU60_12350) lptB 2499855..2500580 (+) 726 WP_000224099.1 LPS export ABC transporter ATP-binding protein -
  WHU60_RS12355 (WHU60_12355) rpoN/rpoN1 2500628..2502061 (+) 1434 WP_000809051.1 RNA polymerase factor sigma-54 Machinery gene
  WHU60_RS12360 (WHU60_12360) hpf 2502084..2502371 (+) 288 WP_001176599.1 ribosome hibernation promoting factor -
  WHU60_RS12365 (WHU60_12365) ptsN 2502489..2502980 (+) 492 WP_000183676.1 PTS IIA-like nitrogen regulatory protein PtsN -
  WHU60_RS12370 (WHU60_12370) rapZ 2503026..2503880 (+) 855 WP_000243741.1 RNase adapter RapZ -
  WHU60_RS12375 (WHU60_12375) npr 2503877..2504149 (+) 273 WP_000216791.1 PTS phosphocarrier protein NPr -
  WHU60_RS12380 (WHU60_12380) yrbL 2504363..2504995 (+) 633 WP_000620387.1 PhoP regulatory network protein YrbL -
  WHU60_RS12385 (WHU60_12385) mtgA 2504992..2505720 (-) 729 WP_000047091.1 monofunctional biosynthetic peptidoglycan transglycosylase -
  WHU60_RS12390 (WHU60_12390) elbB 2505717..2506370 (-) 654 WP_001299134.1 isoprenoid biosynthesis glyoxalase ElbB -

Sequence

Protein


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

>NTDB_id=871289 WHU60_RS12355 WP_000809051.1 2500628..2502061(+) (rpoN/rpoN1) [Escherichia coli strain Z1323HEC0009]
MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRETQDSETLDTADALEQKEMPE
ELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQDYLMWQVELTPFSDTDRAIATSIVDAVDDTGYLTVPLED
ILESMGDEEIDIDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTR
LKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQINQHYASMCNNARNDGDSQFIR
SNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELK
YFFSSHVNTEGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQLV

Nucleotide


Download         Length: 1434 bp        

>NTDB_id=871289 WHU60_RS12355 WP_000809051.1 2500628..2502061(+) (rpoN/rpoN1) [Escherichia coli strain Z1323HEC0009]
ATGAAGCAAGGTTTGCAACTCAGGCTTAGCCAACAACTGGCGATGACGCCACAGCTCCAACAGGCAATTCGTCTGTTGCA
GTTGTCGACGCTGGAACTTCAGCAGGAGCTACAGCAGGCGCTGGAGAGTAATCCGCTGCTTGAGCAAATCGACACTCATG
AAGAAATCGACACCCGCGAAACGCAAGACAGTGAAACGCTGGACACCGCCGACGCGCTCGAACAAAAAGAGATGCCGGAA
GAGCTGCCGCTCGATGCCAGTTGGGACACCATTTACACCGCTGGTACACCATCCGGCACCAGCGGTGACTACATTGACGA
TGAGCTGCCGGTCTATCAGGGCGAAACGACGCAGACCTTGCAGGATTACCTGATGTGGCAGGTCGAGCTGACACCGTTTT
CCGACACTGACCGCGCTATTGCTACCTCTATCGTCGATGCCGTTGATGACACCGGTTATCTGACTGTCCCGCTGGAAGAT
ATTCTCGAAAGTATGGGCGATGAAGAGATCGACATCGACGAGGTTGAAGCCGTCCTTAAGCGGATCCAACGGTTTGATCC
GGTCGGTGTAGCGGCAAAAGATCTGCGTGACTGCCTGCTAATCCAACTCTCCCAATTCGATAAAACCACGCCGTGGCTGG
AAGAGGCCAGACTGATCATTAGCGATCATCTCGATCTGTTAGCCAATCACGACTTCCGCACTTTAATGCGCGTCACGCGT
CTGAAAGAAGATGTGCTGAAAGAAGCCGTCAATCTGATCCAGTCGCTCGATCCGCGCCCCGGGCAGTCGATCCAGACTGG
CGAACCTGAGTATGTCATTCCAGATGTGCTGGTGCGTAAGCATAACGGTCACTGGACGGTAGAACTCAACAGTGACAGCA
TTCCGCGTCTGCAAATCAACCAGCACTACGCCTCGATGTGCAATAACGCGCGCAACGATGGTGACAGCCAGTTTATCCGC
AGCAATCTGCAGGATGCCAAATGGTTGATCAAGAGTCTGGAAAGCCGTAACGATACGCTACTGCGCGTGAGTCGCTGTAT
CGTTGAACAGCAGCAAGCCTTCTTTGAGCAAGGTGAAGAATATATGAAACCGATGGTACTGGCCGATATCGCCCAGGCTG
TCGAAATGCATGAATCGACGATATCTCGCGTGACCACGCAAAAATACCTGCATAGTCCACGAGGCATTTTTGAACTGAAG
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