Detailed information    

insolico Bioinformatically predicted

Overview

Name   rpoN/rpoN1   Type   Machinery gene
Locus tag   R4535_RS11200 Genome accession   NZ_CP137091
Coordinates   2498282..2499745 (+) Length   487 a.a.
NCBI ID   WP_033932928.1    Uniprot ID   -
Organism   Vibrio cholerae strain DL4211     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 2493282..2504745
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  R4535_RS11170 (R4535_11145) - 2493914..2494876 (+) 963 WP_000904329.1 calcium/sodium antiporter -
  R4535_RS11175 (R4535_11150) kdsD 2494932..2495906 (+) 975 WP_175597516.1 arabinose-5-phosphate isomerase KdsD -
  R4535_RS11180 (R4535_11155) kdsC 2495906..2496463 (+) 558 WP_000099768.1 3-deoxy-manno-octulosonate-8-phosphatase KdsC -
  R4535_RS11185 (R4535_11160) lptC 2496460..2497023 (+) 564 WP_000059348.1 LPS export ABC transporter periplasmic protein LptC -
  R4535_RS11190 (R4535_11165) lptA 2497004..2497498 (+) 495 WP_000830444.1 lipopolysaccharide transport periplasmic protein LptA -
  R4535_RS11195 (R4535_11170) lptB 2497501..2498226 (+) 726 WP_000996178.1 LPS export ABC transporter ATP-binding protein -
  R4535_RS11200 (R4535_11175) rpoN/rpoN1 2498282..2499745 (+) 1464 WP_033932928.1 RNA polymerase factor sigma-54 Machinery gene
  R4535_RS11205 (R4535_11180) hpf 2499770..2500057 (+) 288 WP_001166643.1 ribosome hibernation promoting factor -
  R4535_RS11210 (R4535_11185) ptsN 2500060..2500506 (+) 447 WP_001177163.1 PTS IIA-like nitrogen regulatory protein PtsN -
  R4535_RS11215 (R4535_11190) rapZ 2500519..2501379 (+) 861 WP_001237198.1 RNase adapter RapZ -
  R4535_RS11220 (R4535_11195) - 2501388..2501666 (+) 279 WP_001135899.1 HPr family phosphocarrier protein -
  R4535_RS11225 (R4535_11200) mgtE 2501827..2503188 (+) 1362 WP_000840452.1 magnesium transporter -
  R4535_RS11230 (R4535_11205) pmbA 2503261..2504604 (-) 1344 WP_076025303.1 metalloprotease PmbA -

Sequence

Protein


Download         Length: 487 a.a.        Molecular weight: 55438.47 Da        Isoelectric Point: 4.2824

>NTDB_id=818248 R4535_RS11200 WP_033932928.1 2498282..2499745(+) (rpoN/rpoN1) [Vibrio cholerae strain DL4211]
MKPSLQLKLGQQLAMTPQLQQAIRLLQLSTLDLQQEIQEALESNPLLEVEENQDEAPSLDSVRMTEESPREPEELYEPEP
QDSSDLIEKSEISAELEMDTTWDEVYSANTGSTGLALDDDAPIYQGETTQTLQDYLHWQLDLTPFSDVDRTIAVALIDAI
DDYGYLTVSLEEIQESLRSDDIELDEIEAVRKRIQQFDPFGVASLNLQDCLLLQLTTYPCDTPWLEEARILLSQYIDDLG
NRDYKTILKETKLKEEDLREILQLIQQLDPRPGSRIAQDHAEYVIPDVSVYKEQGRWLVTINPDSVPKLKINQQYADLMR
GNNAESNYIRTNLQEAKWLIKSLESRNETLLKVAKCIVEHQHDFFEYGEEAMKPMVLNDVAMAVEMHESTISRVTTQKYM
HTPRGIFELKYFFSSHVSTDNGGECSSTAIRALIKKLVAAENPAKPLSDSKIATLLADQGIQVARRTIAKYRESLGIAPS
SQRKRLL

Nucleotide


Download         Length: 1464 bp        

>NTDB_id=818248 R4535_RS11200 WP_033932928.1 2498282..2499745(+) (rpoN/rpoN1) [Vibrio cholerae strain DL4211]
ATGAAACCGTCATTACAGCTCAAGCTAGGTCAACAGTTAGCCATGACTCCGCAGCTCCAGCAGGCGATTCGTCTGTTGCA
GCTTTCGACGCTGGATCTGCAGCAAGAAATTCAGGAAGCATTGGAATCTAACCCCTTGTTAGAGGTGGAAGAGAACCAAG
ACGAAGCGCCATCGCTTGATAGCGTACGTATGACGGAAGAAAGCCCGCGCGAGCCAGAAGAACTCTACGAACCTGAACCG
CAGGATAGCTCGGATCTGATTGAAAAATCGGAAATCAGCGCTGAATTAGAGATGGATACCACTTGGGATGAAGTCTACAG
CGCCAATACTGGCAGTACAGGACTGGCACTCGATGATGATGCCCCTATCTACCAAGGCGAAACCACCCAAACCCTGCAAG
ATTATCTTCACTGGCAACTCGACTTAACTCCCTTTAGCGATGTGGATCGCACTATAGCCGTCGCACTTATCGATGCTATC
GACGATTACGGTTATTTAACCGTCTCACTAGAGGAGATCCAAGAGAGCCTGCGCAGTGATGACATTGAGTTGGATGAGAT
TGAAGCGGTACGTAAACGCATTCAGCAGTTTGACCCCTTTGGTGTGGCATCGCTTAATCTGCAAGACTGCTTGTTGCTGC
AACTCACCACCTATCCCTGTGATACTCCTTGGCTGGAAGAAGCGCGTATACTGCTCTCACAGTACATCGATGATTTAGGG
AATCGCGATTACAAAACCATTCTGAAAGAGACTAAGCTCAAAGAAGAGGACTTGCGCGAGATCCTGCAACTCATCCAACA
GCTCGATCCTCGCCCCGGCAGTCGAATTGCCCAAGATCACGCTGAATACGTTATACCTGACGTGTCAGTCTATAAAGAAC
AAGGTCGATGGCTGGTCACCATCAACCCAGATAGTGTGCCTAAACTGAAGATCAATCAGCAGTATGCCGACCTGATGCGC
GGTAATAATGCGGAGAGCAACTACATCCGTACCAATTTGCAAGAGGCAAAATGGCTGATCAAAAGTTTAGAAAGTAGAAA
CGAGACACTGCTCAAAGTTGCCAAGTGCATAGTTGAACACCAACACGATTTCTTCGAGTATGGAGAAGAGGCGATGAAGC
CGATGGTGCTTAACGATGTGGCGATGGCGGTGGAAATGCATGAATCGACAATTTCGCGTGTCACCACGCAGAAATACATG
CATACCCCGCGCGGCATTTTTGAGTTGAAGTACTTTTTCTCCAGCCACGTCAGTACTGACAATGGCGGAGAGTGCTCGTC
CACTGCGATCAGGGCGCTGATCAAAAAACTGGTGGCGGCAGAGAATCCTGCCAAACCACTGAGTGACAGCAAGATCGCAA
CCCTACTCGCTGACCAAGGCATCCAAGTCGCGCGGCGAACCATCGCCAAATATCGTGAATCACTTGGCATCGCCCCATCA
AGTCAGCGCAAACGCCTGCTATAG

Domains

Predicted by InterProScan.

Sigma-54 factor, core binding domain (Sigma54_CBD)

(128-315)

Sigma-54 factor, Activator interacting domain (AID) (Sigma54_AID)

(4-49)

Sigma-54, DNA binding domain (Sigma54_DBD)

(327-485)


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

44.533

100

0.46