Detailed information    

insolico Bioinformatically predicted

Overview

Name   rpoN/rpoN1   Type   Machinery gene
Locus tag   ABU640_RS01860 Genome accession   NZ_CP161854
Coordinates   387988..389451 (-) Length   487 a.a.
NCBI ID   WP_000804830.1    Uniprot ID   Q9KP49
Organism   Vibrio cholerae strain C3616     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 382988..394451
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  ABU640_RS01830 (ABU640_01830) pmbA 383129..384472 (+) 1344 WP_001965764.1 metalloprotease PmbA -
  ABU640_RS01835 (ABU640_01835) mgtE 384545..385906 (-) 1362 WP_000840449.1 magnesium transporter -
  ABU640_RS01840 (ABU640_01840) - 386067..386345 (-) 279 WP_001135899.1 HPr family phosphocarrier protein -
  ABU640_RS01845 (ABU640_01845) rapZ 386354..387214 (-) 861 WP_001965750.1 RNase adapter RapZ -
  ABU640_RS01850 (ABU640_01850) ptsN 387227..387673 (-) 447 WP_001177163.1 PTS IIA-like nitrogen regulatory protein PtsN -
  ABU640_RS01855 (ABU640_01855) hpf 387676..387963 (-) 288 WP_001166643.1 ribosome hibernation promoting factor -
  ABU640_RS01860 (ABU640_01860) rpoN/rpoN1 387988..389451 (-) 1464 WP_000804830.1 RNA polymerase factor sigma-54 Machinery gene
  ABU640_RS01865 (ABU640_01865) lptB 389507..390232 (-) 726 WP_000996178.1 LPS export ABC transporter ATP-binding protein -
  ABU640_RS01870 (ABU640_01870) lptA 390235..390729 (-) 495 WP_000830444.1 lipopolysaccharide transport periplasmic protein LptA -
  ABU640_RS01875 (ABU640_01875) lptC 390710..391273 (-) 564 WP_000059348.1 LPS export ABC transporter periplasmic protein LptC -
  ABU640_RS01880 (ABU640_01880) kdsC 391270..391827 (-) 558 WP_000099768.1 3-deoxy-manno-octulosonate-8-phosphatase KdsC -
  ABU640_RS01885 (ABU640_01885) kdsD 391827..392801 (-) 975 WP_001120614.1 arabinose-5-phosphate isomerase KdsD -
  ABU640_RS01890 (ABU640_01890) - 392857..393819 (-) 963 WP_000904329.1 calcium/sodium antiporter -

Sequence

Protein


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

>NTDB_id=919216 ABU640_RS01860 WP_000804830.1 387988..389451(-) (rpoN/rpoN1) [Vibrio cholerae strain C3616]
MKPSLQLKLGQQLAMTPQLQQAIRLLQLSTLDLQQEIQEALESNPLLEVEENQDEAPSLDSVRMTEESPREPEELYEPEP
QDSSDLIEKSEISAELEMDTTWDEVYSANTGSTGLALDDDAPIYQGETTQTLQDYLHWQLDLTPFSDVDRTIAVALIDAI
DDYGYLTVSLEEIQESLRSDDIELDEIEAVRKRIQQFDPFGVASLNLQDCLLLQLTTYPCDTPWLEEARLLLSQYIDDLG
NRDYKTILKETKLKEEDLREILQLIQQLDPRPGSRIAQDHAEYVIPDVSVYKEQGRWLVTINPDSVPKLKINQQYADLMR
GNNAESNYIRTNLQEAKWLIKSLESRNETLLKVAKCIVEHQHDFFEYGEEAMKPMVLNDVAMAVEMHESTISRVTTQKYM
HTPRGIFELKYFFSSHVSTDNGGECSSTAIRALIKKLVAAENPAKPLSDSKIATLLADQGIQVARRTIAKYRESLGIAPS
SQRKRLL

Nucleotide


Download         Length: 1464 bp        

>NTDB_id=919216 ABU640_RS01860 WP_000804830.1 387988..389451(-) (rpoN/rpoN1) [Vibrio cholerae strain C3616]
ATGAAACCGTCATTACAGCTCAAGCTAGGTCAACAGTTAGCCATGACTCCGCAGCTCCAGCAGGCGATTCGTCTGTTGCA
GCTTTCGACGCTGGATCTGCAGCAAGAAATTCAGGAAGCATTGGAATCTAACCCCTTGTTAGAGGTGGAAGAGAACCAAG
ACGAAGCGCCATCGCTTGATAGCGTACGTATGACGGAAGAAAGCCCGCGCGAGCCAGAAGAACTCTACGAACCTGAACCG
CAGGATAGCTCGGATCTGATTGAAAAATCGGAAATCAGCGCTGAATTAGAGATGGATACCACTTGGGATGAAGTCTACAG
CGCCAATACTGGTAGTACAGGACTGGCACTCGATGATGATGCCCCTATCTACCAAGGCGAAACCACCCAAACTCTGCAAG
ATTATCTTCACTGGCAACTCGACTTAACTCCCTTTAGCGATGTGGATCGCACTATAGCAGTTGCACTTATCGATGCTATC
GACGATTACGGTTATTTAACCGTCTCACTAGAGGAGATCCAAGAGAGCCTGCGCAGTGATGACATTGAGTTGGATGAGAT
TGAAGCGGTACGTAAACGCATTCAGCAGTTTGACCCCTTTGGTGTGGCATCGCTTAATCTGCAAGACTGCTTGTTGCTGC
AGCTCACCACCTATCCCTGTGATACTCCTTGGCTGGAAGAAGCGCGTTTACTGCTCTCACAGTACATCGATGATTTAGGG
AATCGCGATTACAAAACCATTCTGAAAGAGACTAAGCTCAAAGAAGAGGACTTGCGCGAGATCCTGCAACTCATCCAACA
GCTCGATCCTCGCCCCGGCAGTCGAATTGCCCAAGATCACGCTGAATACGTCATTCCTGACGTGTCAGTCTATAAAGAAC
AAGGTCGATGGCTGGTCACCATCAACCCAGATAGTGTGCCTAAACTGAAGATCAATCAGCAGTATGCCGACCTGATGCGC
GGTAATAATGCGGAGAGCAACTACATCCGTACCAATTTGCAAGAGGCAAAATGGCTGATCAAAAGTTTAGAAAGTAGAAA
CGAGACACTGCTCAAAGTTGCCAAGTGCATAGTTGAACACCAACACGATTTCTTCGAGTATGGAGAAGAGGCGATGAAGC
CGATGGTGCTCAACGATGTGGCGATGGCGGTGGAAATGCATGAATCGACAATTTCGCGTGTCACCACGCAGAAATACATG
CATACCCCGCGCGGCATTTTTGAGTTGAAGTACTTTTTCTCCAGCCACGTCAGTACTGACAATGGCGGAGAGTGCTCGTC
CACTGCGATCAGGGCGCTGATCAAAAAGCTGGTGGCGGCAGAGAATCCTGCCAAACCACTCAGTGACAGCAAGATCGCAA
CCCTACTCGCTGACCAAGGCATCCAAGTCGCGCGGCGAACCATCGCCAAATATCGTGAATCACTTGGCATCGCCCCATCA
AGTCAGCGTAAACGCCTGCTATAG

Domains

Predicted by InterProScan.

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

(4-49)

Sigma-54, DNA binding domain (Sigma54_DBD)

(327-485)

Sigma-54 factor, core binding domain (Sigma54_CBD)

(128-315)


Secondary structure

Protein secondary structures were predicted by S4PRED and visualized by seqviz.



3D structure

Source ID Structure
  AlphaFold DB Q9KP49

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