Detailed information    

insolico Bioinformatically predicted

Overview

Name   rpoN/rpoN1   Type   Machinery gene
Locus tag   V6S28_RS03255 Genome accession   NZ_CP145700
Coordinates   537857..539290 (-) Length   477 a.a.
NCBI ID   WP_000809040.1    Uniprot ID   -
Organism   Escherichia coli strain S1-IVC-02-A     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 532857..544290
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  V6S28_RS03220 (V6S28_03220) elbB 533548..534201 (+) 654 WP_001300411.1 isoprenoid biosynthesis glyoxalase ElbB -
  V6S28_RS03225 (V6S28_03225) mtgA 534198..534926 (+) 729 WP_000047091.1 monofunctional biosynthetic peptidoglycan transglycosylase -
  V6S28_RS03230 (V6S28_03230) yrbL 534923..535555 (-) 633 WP_000620405.1 PhoP regulatory network protein YrbL -
  V6S28_RS03235 (V6S28_03235) npr 535769..536041 (-) 273 WP_000216791.1 PTS phosphocarrier protein NPr -
  V6S28_RS03240 (V6S28_03240) rapZ 536038..536892 (-) 855 WP_000243741.1 RNase adapter RapZ -
  V6S28_RS03245 (V6S28_03245) ptsN 536938..537429 (-) 492 WP_000183676.1 PTS IIA-like nitrogen regulatory protein PtsN -
  V6S28_RS03250 (V6S28_03250) hpf 537547..537834 (-) 288 WP_001176599.1 ribosome hibernation promoting factor -
  V6S28_RS03255 (V6S28_03255) rpoN/rpoN1 537857..539290 (-) 1434 WP_000809040.1 RNA polymerase factor sigma-54 Machinery gene
  V6S28_RS03260 (V6S28_03260) lptB 539338..540063 (-) 726 WP_000224099.1 LPS export ABC transporter ATP-binding protein -
  V6S28_RS03265 (V6S28_03265) lptA 540070..540627 (-) 558 WP_000669785.1 lipopolysaccharide ABC transporter substrate-binding protein LptA -
  V6S28_RS03270 (V6S28_03270) lptC 540596..541171 (-) 576 WP_000030537.1 LPS export ABC transporter periplasmic protein LptC -
  V6S28_RS03275 (V6S28_03275) kdsC 541168..541734 (-) 567 WP_000030005.1 3-deoxy-manno-octulosonate-8-phosphatase KdsC -
  V6S28_RS03280 (V6S28_03280) kdsD 541755..542741 (-) 987 WP_001295557.1 arabinose-5-phosphate isomerase KdsD -
  V6S28_RS03285 (V6S28_03285) yrbG 542755..543732 (-) 978 WP_000922901.1 calcium/sodium antiporter -

Sequence

Protein


Download         Length: 477 a.a.        Molecular weight: 53975.76 Da        Isoelectric Point: 4.3639

>NTDB_id=852500 V6S28_RS03255 WP_000809040.1 537857..539290(-) (rpoN/rpoN1) [Escherichia coli strain S1-IVC-02-A]
MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRETQDSETLDTADALEQKEMPE
ELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQDYLMWQVELTPFSDTDRAIATSIVDAVDDTGYLTVPLED
ILESIGDEEIDIDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTR
LKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQINQHYASMCNNARNDGDSQFIR
SNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELK
YFFSSHVNTEGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQLV

Nucleotide


Download         Length: 1434 bp        

>NTDB_id=852500 V6S28_RS03255 WP_000809040.1 537857..539290(-) (rpoN/rpoN1) [Escherichia coli strain S1-IVC-02-A]
ATGAAGCAAGGTTTGCAACTCAGGCTTAGCCAACAACTGGCGATGACGCCACAGCTTCAACAGGCGATTCGTCTGTTGCA
GTTGTCGACGCTGGAACTTCAGCAGGAGCTACAGCAGGCGCTGGAGAGTAATCCGCTGCTTGAGCAAATCGACACTCATG
AAGAAATCGACACCCGCGAAACGCAAGACAGTGAAACGCTGGACACCGCCGACGCGCTCGAACAAAAAGAGATGCCGGAA
GAGCTGCCGCTCGATGCCAGTTGGGACACCATTTACACCGCTGGTACACCATCCGGCACCAGCGGTGACTACATTGACGA
TGAGCTGCCGGTCTATCAGGGCGAAACGACGCAGACCTTGCAGGATTACCTGATGTGGCAGGTCGAGCTGACACCGTTTT
CCGACACTGACCGCGCTATTGCTACCTCTATCGTCGATGCCGTTGATGACACCGGTTATCTGACTGTCCCGCTGGAAGAT
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

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