Detailed information    

insolico Bioinformatically predicted

Overview

Name   rpoN/rpoN1   Type   Machinery gene
Locus tag   VYI63_RS19065 Genome accession   NZ_CP142930
Coordinates   3860615..3862048 (-) Length   477 a.a.
NCBI ID   WP_000809051.1    Uniprot ID   A0A0H2VDV8
Organism   Escherichia coli strain B20123     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 3855615..3867048
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  VYI63_RS19030 (VYI63_19030) elbB 3856306..3856959 (+) 654 WP_000719794.1 isoprenoid biosynthesis glyoxalase ElbB -
  VYI63_RS19035 (VYI63_19035) mtgA 3856956..3857684 (+) 729 WP_000047069.1 monofunctional biosynthetic peptidoglycan transglycosylase -
  VYI63_RS19040 (VYI63_19040) yrbL 3857681..3858313 (-) 633 WP_000620407.1 PhoP regulatory network protein YrbL -
  VYI63_RS19045 (VYI63_19045) npr 3858527..3858799 (-) 273 WP_000216791.1 PTS phosphocarrier protein NPr -
  VYI63_RS19050 (VYI63_19050) rapZ 3858796..3859650 (-) 855 WP_000243741.1 RNase adapter RapZ -
  VYI63_RS19055 (VYI63_19055) ptsN 3859696..3860187 (-) 492 WP_000183674.1 PTS IIA-like nitrogen regulatory protein PtsN -
  VYI63_RS19060 (VYI63_19060) hpf 3860305..3860592 (-) 288 WP_001176599.1 ribosome hibernation promoting factor -
  VYI63_RS19065 (VYI63_19065) rpoN/rpoN1 3860615..3862048 (-) 1434 WP_000809051.1 RNA polymerase factor sigma-54 Machinery gene
  VYI63_RS19070 (VYI63_19070) lptB 3862096..3862821 (-) 726 WP_000224099.1 LPS export ABC transporter ATP-binding protein -
  VYI63_RS19075 (VYI63_19075) lptA 3862828..3863385 (-) 558 WP_000669785.1 lipopolysaccharide ABC transporter substrate-binding protein LptA -
  VYI63_RS19080 (VYI63_19080) lptC 3863354..3863929 (-) 576 WP_000030537.1 LPS export ABC transporter periplasmic protein LptC -
  VYI63_RS19085 (VYI63_19085) kdsC 3863926..3864492 (-) 567 WP_000030016.1 3-deoxy-manno-octulosonate-8-phosphatase KdsC -
  VYI63_RS19090 (VYI63_19090) kdsD 3864513..3865499 (-) 987 WP_001295557.1 arabinose-5-phosphate isomerase KdsD -
  VYI63_RS19095 (VYI63_19095) yrbG 3865513..3866490 (-) 978 WP_000922880.1 calcium/sodium antiporter -

Sequence

Protein


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

>NTDB_id=842754 VYI63_RS19065 WP_000809051.1 3860615..3862048(-) (rpoN/rpoN1) [Escherichia coli strain B20123]
MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRETQDSETLDTADALEQKEMPE
ELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQDYLMWQVELTPFSDTDRAIATSIVDAVDDTGYLTVPLED
ILESMGDEEIDIDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTR
LKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQINQHYASMCNNARNDGDSQFIR
SNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELK
YFFSSHVNTEGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQLV

Nucleotide


Download         Length: 1434 bp        

>NTDB_id=842754 VYI63_RS19065 WP_000809051.1 3860615..3862048(-) (rpoN/rpoN1) [Escherichia coli strain B20123]
ATGAAGCAAGGTTTGCAACTCAGGCTTAGCCAACAACTGGCGATGACGCCACAGCTCCAACAGGCAATTCGTCTGTTGCA
GTTGTCGACGCTGGAACTTCAGCAGGAGCTACAGCAGGCGCTGGAGAGCAATCCGCTGCTTGAGCAAATCGACACTCATG
AAGAAATCGACACCCGCGAAACGCAAGACAGTGAAACACTGGACACCGCCGACGCGCTCGAACAAAAAGAGATGCCGGAA
GAGCTGCCGCTCGATGCCAGTTGGGACACCATTTACACCGCTGGTACACCATCCGGCACCAGCGGTGACTACATTGACGA
CGAGCTGCCGGTCTATCAGGGCGAAACGACACAGACCTTACAGGATTACCTGATGTGGCAGGTCGAGTTGACACCATTTT
CCGACACTGACCGCGCGATTGCTACCTCTATCGTCGATGCCGTTGATGACACCGGTTATCTGACTGTCCCGCTGGAAGAT
ATTCTCGAAAGTATGGGCGATGAAGAGATTGACATCGACGAAGTTGAAGCCGTCCTTAAGCGGATCCAACGGTTTGATCC
GGTCGGTGTGGCGGCAAAAGATCTGCGTGACTGCCTGCTGATCCAACTCTCCCAATTCGATAAGACCACGCCATGGCTGG
AAGAGGCCAGACTGATCATTAGCGATCATCTCGATCTATTAGCCAATCACGACTTCCGCACTTTAATGCGCGTCACGCGT
CTGAAAGAAGATGTGCTGAAAGAAGCCGTCAATCTGATCCAGTCGCTCGATCCGCGCCCCGGGCAGTCGATCCAGACTGG
CGAACCTGAGTATGTCATTCCAGATGTGCTGGTGCGTAAGCATAACGGTCACTGGACGGTAGAACTCAACAGTGACAGCA
TTCCGCGTTTGCAAATCAACCAGCACTACGCCTCGATGTGCAATAACGCGCGCAACGATGGTGATAGCCAGTTTATCCGC
AGCAATCTGCAGGATGCCAAATGGTTGATCAAGAGTCTGGAAAGCCGTAACGATACGCTACTGCGCGTGAGTCGCTGTAT
CGTTGAACAGCAGCAAGCCTTCTTTGAGCAAGGCGAAGAATATATGAAACCGATGGTACTGGCTGATATCGCCCAGGCCG
TCGAGATGCATGAATCGACGATATCTCGCGTGACCACGCAAAAATACCTGCATAGTCCACGAGGCATTTTTGAACTAAAG
TATTTCTTTTCCAGTCACGTCAATACTGAAGGCGGGGGTGAAGCCTCTTCCACAGCGATTCGCGCACTGGTGAAGAAATT
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