Detailed information    

insolico Bioinformatically predicted

Overview

Name   rpoN/rpoN1   Type   Machinery gene
Locus tag   VB103_RS02620 Genome accession   NZ_CP141840
Coordinates   535139..536572 (-) Length   477 a.a.
NCBI ID   WP_000809051.1    Uniprot ID   A0A0H2VDV8
Organism   Escherichia coli strain LA3     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 530139..541572
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  VB103_RS02585 (VB103_02585) elbB 530830..531483 (+) 654 WP_001299134.1 isoprenoid biosynthesis glyoxalase ElbB -
  VB103_RS02590 (VB103_02590) mtgA 531480..532208 (+) 729 WP_000047091.1 monofunctional biosynthetic peptidoglycan transglycosylase -
  VB103_RS02595 (VB103_02595) yrbL 532205..532837 (-) 633 WP_000620405.1 PhoP regulatory network protein YrbL -
  VB103_RS02600 (VB103_02600) npr 533051..533323 (-) 273 WP_000216791.1 PTS phosphocarrier protein NPr -
  VB103_RS02605 (VB103_02605) rapZ 533320..534174 (-) 855 WP_000243741.1 RNase adapter RapZ -
  VB103_RS02610 (VB103_02610) ptsN 534220..534711 (-) 492 WP_000183676.1 PTS IIA-like nitrogen regulatory protein PtsN -
  VB103_RS02615 (VB103_02615) hpf 534829..535116 (-) 288 WP_001176599.1 ribosome hibernation promoting factor -
  VB103_RS02620 (VB103_02620) rpoN/rpoN1 535139..536572 (-) 1434 WP_000809051.1 RNA polymerase factor sigma-54 Machinery gene
  VB103_RS02625 (VB103_02625) lptB 536620..537345 (-) 726 WP_000224099.1 LPS export ABC transporter ATP-binding protein -
  VB103_RS02630 (VB103_02630) lptA 537352..537909 (-) 558 WP_000669785.1 lipopolysaccharide ABC transporter substrate-binding protein LptA -
  VB103_RS02635 (VB103_02635) lptC 537878..538453 (-) 576 WP_000030537.1 LPS export ABC transporter periplasmic protein LptC -
  VB103_RS02640 (VB103_02640) kdsC 538450..539016 (-) 567 WP_000030016.1 3-deoxy-manno-octulosonate-8-phosphatase KdsC -
  VB103_RS02645 (VB103_02645) kdsD 539037..540023 (-) 987 WP_001295557.1 arabinose-5-phosphate isomerase KdsD -
  VB103_RS02650 (VB103_02650) yrbG 540037..541014 (-) 978 WP_000922901.1 calcium/sodium antiporter -

Sequence

Protein


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

>NTDB_id=838427 VB103_RS02620 WP_000809051.1 535139..536572(-) (rpoN/rpoN1) [Escherichia coli strain LA3]
MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRETQDSETLDTADALEQKEMPE
ELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQDYLMWQVELTPFSDTDRAIATSIVDAVDDTGYLTVPLED
ILESMGDEEIDIDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTR
LKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQINQHYASMCNNARNDGDSQFIR
SNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELK
YFFSSHVNTEGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQLV

Nucleotide


Download         Length: 1434 bp        

>NTDB_id=838427 VB103_RS02620 WP_000809051.1 535139..536572(-) (rpoN/rpoN1) [Escherichia coli strain LA3]
ATGAAGCAAGGTTTGCAACTCAGGCTTAGCCAACAACTGGCGATGACGCCACAGCTCCAACAGGCAATTCGTCTGTTGCA
GTTGTCGACGCTGGAACTTCAGCAGGAGCTACAGCAGGCGCTGGAGAGTAATCCGCTGCTTGAGCAAATCGACACTCATG
AAGAAATCGACACCCGCGAAACGCAAGACAGTGAAACGCTGGACACCGCCGACGCGCTCGAACAAAAAGAGATGCCGGAA
GAGCTGCCGCTCGATGCCAGTTGGGACACCATTTACACCGCTGGTACACCATCCGGCACCAGCGGTGACTACATTGACGA
TGAGCTGCCGGTCTATCAGGGCGAAACGACGCAGACCTTGCAGGATTACCTGATGTGGCAGGTCGAGCTGACACCGTTTT
CCGACACTGACCGCGCTATTGCTACCTCTATCGTCGATGCCGTTGATGACACCGGTTATCTGACTGTCCCGCTGGAAGAT
ATTCTCGAAAGTATGGGCGATGAAGAGATCGACATCGACGAGGTTGAAGCCGTCCTTAAGCGGATCCAACGGTTTGATCC
GGTCGGTGTAGCGGCAAAAGATCTGCGTGACTGCCTGCTAATCCAACTCTCCCAATTCGATAAAACCACGCCGTGGCTGG
AAGAGGCCAGACTGATCATTAGCGATCATCTCGATCTGTTAGCCAATCACGACTTCCGCACTTTAATGCGCGTCACGCGT
CTGAAAGAAGATGTGCTGAAAGAAGCCGTCAATCTGATCCAGTCGCTCGATCCGCGCCCCGGGCAGTCGATCCAGACTGG
CGAACCTGAGTATGTCATTCCAGATGTGCTGGTGCGTAAGCATAACGGTCACTGGACGGTAGAACTCAACAGTGACAGCA
TTCCGCGTCTGCAAATCAACCAGCACTACGCCTCGATGTGCAATAACGCGCGCAACGATGGTGACAGCCAGTTTATCCGC
AGCAATCTGCAGGATGCCAAATGGTTGATCAAGAGTCTGGAAAGCCGTAACGATACGCTACTGCGCGTGAGTCGCTGTAT
CGTTGAACAGCAGCAAGCCTTCTTTGAGCAAGGTGAAGAATATATGAAACCGATGGTACTGGCCGATATCGCCCAGGCTG
TCGAAATGCATGAATCGACGATATCTCGCGTGACCACGCAAAAATACCTGCATAGTCCACGAGGCATTTTTGAACTGAAG
TATTTCTTTTCCAGTCACGTCAATACCGAGGGCGGCGGCGAAGCTTCCTCCACGGCGATTCGTGCGCTGGTGAAGAAATT
AATCGCGGCGGAAAACCCAGCGAAACCGTTGAGCGACAGCAAGTTAACCTCTTTACTGTCGGAACAAGGTATCATGGTGG
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