Detailed information    

insolico Bioinformatically predicted

Overview

Name   rpoN/rpoN1   Type   Machinery gene
Locus tag   PIB88_RS10210 Genome accession   NZ_CP116145
Coordinates   2108638..2110071 (+) Length   477 a.a.
NCBI ID   WP_000809051.1    Uniprot ID   A0A0H2VDV8
Organism   Escherichia coli strain DETEC-P622     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 2103638..2115071
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  PIB88_RS10180 (PIB88_10180) yrbG 2104196..2105173 (+) 978 WP_000922880.1 calcium/sodium antiporter -
  PIB88_RS10185 (PIB88_10185) kdsD 2105187..2106173 (+) 987 WP_001295557.1 arabinose-5-phosphate isomerase KdsD -
  PIB88_RS10190 (PIB88_10190) kdsC 2106194..2106760 (+) 567 WP_000030016.1 3-deoxy-manno-octulosonate-8-phosphatase KdsC -
  PIB88_RS10195 (PIB88_10195) lptC 2106757..2107332 (+) 576 WP_000030537.1 LPS export ABC transporter periplasmic protein LptC -
  PIB88_RS10200 (PIB88_10200) lptA 2107301..2107858 (+) 558 WP_000669785.1 lipopolysaccharide ABC transporter substrate-binding protein LptA -
  PIB88_RS10205 (PIB88_10205) lptB 2107865..2108590 (+) 726 WP_271287814.1 LPS export ABC transporter ATP-binding protein -
  PIB88_RS10210 (PIB88_10210) rpoN/rpoN1 2108638..2110071 (+) 1434 WP_000809051.1 RNA polymerase factor sigma-54 Machinery gene
  PIB88_RS10215 (PIB88_10215) hpf 2110094..2110381 (+) 288 WP_001176599.1 ribosome hibernation promoting factor -
  PIB88_RS10220 (PIB88_10220) ptsN 2110499..2110990 (+) 492 WP_000183674.1 PTS IIA-like nitrogen regulatory protein PtsN -
  PIB88_RS10225 (PIB88_10225) rapZ 2111036..2111890 (+) 855 WP_000243741.1 RNase adapter RapZ -
  PIB88_RS10230 (PIB88_10230) npr 2111887..2112159 (+) 273 WP_000216791.1 PTS phosphocarrier protein NPr -
  PIB88_RS10235 (PIB88_10235) yrbL 2112372..2113004 (+) 633 WP_000620405.1 PhoP regulatory network protein YrbL -
  PIB88_RS10240 (PIB88_10240) mtgA 2113001..2113729 (-) 729 WP_000047069.1 monofunctional biosynthetic peptidoglycan transglycosylase -
  PIB88_RS10245 (PIB88_10245) elbB 2113726..2114379 (-) 654 WP_000719791.1 isoprenoid biosynthesis glyoxalase ElbB -

Sequence

Protein


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

>NTDB_id=708331 PIB88_RS10210 WP_000809051.1 2108638..2110071(+) (rpoN/rpoN1) [Escherichia coli strain DETEC-P622]
MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRETQDSETLDTADALEQKEMPE
ELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQDYLMWQVELTPFSDTDRAIATSIVDAVDDTGYLTVPLED
ILESMGDEEIDIDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTR
LKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQINQHYASMCNNARNDGDSQFIR
SNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELK
YFFSSHVNTEGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQLV

Nucleotide


Download         Length: 1434 bp        

>NTDB_id=708331 PIB88_RS10210 WP_000809051.1 2108638..2110071(+) (rpoN/rpoN1) [Escherichia coli strain DETEC-P622]
ATGAAGCAAGGTTTGCAACTCAGGCTTAGCCAACAACTGGCGATGACGCCACAGCTCCAACAGGCAATTCGTCTGTTGCA
GTTGTCGACGCTGGAACTTCAGCAAGAGCTACAGCAGGCGCTGGAGAGCAATCCGCTGCTTGAGCAAATCGACACTCATG
AAGAAATCGACACCCGCGAAACGCAAGACAGTGAAACACTGGACACCGCCGACGCGCTCGAACAAAAAGAGATGCCGGAA
GAGCTGCCGCTCGATGCCAGTTGGGACACCATTTACACCGCTGGTACACCATCCGGCACCAGCGGTGACTACATTGATGA
CGAGCTGCCGGTCTATCAGGGCGAAACGACGCAGACCTTACAGGATTACCTGATGTGGCAGGTCGAGTTGACACCGTTTT
CCGACACTGACCGCGCGATTGCTACCTCTATCGTCGATGCCGTTGATGACACCGGTTATCTGACTGTCCCGCTGGAAGAT
ATTCTCGAAAGTATGGGCGATGAAGAGATTGACATCGACGAAGTTGAAGCCGTCCTTAAGCGGATCCAACGGTTTGATCC
AGTCGGTGTGGCGGCAAAAGATCTGCGTGACTGCCTGCTGATCCAACTCTCCCAATTCGATAAGACCACGCCATGGCTGG
AAGAGGCCAGACTGATCATTAGCGATCATCTCGATCTATTAGCCAATCACGACTTCCGCACTTTAATGCGCGTCACGCGT
CTGAAAGAAGATGTGCTGAAAGAAGCCGTCAATCTGATCCAGTCGCTCGATCCGCGCCCCGGGCAGTCGATCCAGACTGG
CGAACCTGAGTATGTCATTCCAGATGTGCTGGTGCGTAAGCATAACGGCCACTGGACGGTAGAACTCAACAGTGACAGCA
TTCCGCGTCTGCAAATCAACCAGCACTACGCCTCGATGTGCAATAACGCGCGCAATGATGGTGATAGCCAGTTTATCCGC
AGCAATCTGCAGGATGCCAAATGGTTGATCAAGAGTCTGGAAAGCCGTAACGATACGCTACTGCGCGTGAGTCGCTGTAT
CGTTGAACAGCAGCAAGCCTTCTTTGAGCAAGGTGAAGAATATATGAAACCGATGGTACTGGCCGATATCGCCCAGGCTG
TCGAAATGCATGAATCGACGATATCTCGCGTGACCACGCAAAAATACCTGCATAGTCCACGAGGCATTTTTGAACTGAAA
TATTTCTTTTCCAGTCACGTCAATACTGAAGGCGGGGGTGAAGCCTCTTCCACAGCGATTCGTGCGCTGGTGAAGAAATT
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