Detailed information    

insolico Bioinformatically predicted

Overview

Name   rpoN/rpoN1   Type   Machinery gene
Locus tag   ACK2V6_RS13360 Genome accession   NZ_CP176657
Coordinates   2877023..2878489 (+) Length   488 a.a.
NCBI ID   WP_005478844.1    Uniprot ID   Q87LE2
Organism   Vibrio parahaemolyticus strain GTVSS-032     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 2872023..2883489
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  ACK2V6_RS13335 (ACK2V6_13335) - 2873143..2874108 (+) 966 WP_005455122.1 calcium/sodium antiporter -
  ACK2V6_RS13340 (ACK2V6_13340) kdsD 2874145..2875116 (+) 972 WP_005455124.1 arabinose-5-phosphate isomerase KdsD -
  ACK2V6_RS13345 (ACK2V6_13345) lptC 2875207..2875770 (+) 564 WP_005467805.1 LPS export ABC transporter periplasmic protein LptC -
  ACK2V6_RS13350 (ACK2V6_13350) lptA 2875751..2876245 (+) 495 WP_005467803.1 lipopolysaccharide transport periplasmic protein LptA -
  ACK2V6_RS13355 (ACK2V6_13355) lptB 2876247..2876972 (+) 726 WP_005467801.1 LPS export ABC transporter ATP-binding protein -
  ACK2V6_RS13360 (ACK2V6_13360) rpoN/rpoN1 2877023..2878489 (+) 1467 WP_005478844.1 RNA polymerase factor sigma-54 Machinery gene
  ACK2V6_RS13365 (ACK2V6_13365) hpf 2878514..2878801 (+) 288 WP_005467451.1 ribosome hibernation promoting factor -
  ACK2V6_RS13370 (ACK2V6_13370) ptsN 2878804..2879250 (+) 447 WP_005467453.1 PTS IIA-like nitrogen regulatory protein PtsN -
  ACK2V6_RS13375 (ACK2V6_13375) rapZ 2879265..2880128 (+) 864 WP_005468663.1 RNase adapter RapZ -
  ACK2V6_RS13380 (ACK2V6_13380) - 2880131..2880406 (+) 276 WP_005468661.1 HPr family phosphocarrier protein -
  ACK2V6_RS13385 (ACK2V6_13385) mgtE 2880626..2881981 (+) 1356 WP_005478833.1 magnesium transporter -
  ACK2V6_RS13390 (ACK2V6_13390) pmbA 2882058..2883401 (-) 1344 WP_005478840.1 metalloprotease PmbA -

Sequence

Protein


Download         Length: 488 a.a.        Molecular weight: 54868.69 Da        Isoelectric Point: 4.3441

>NTDB_id=968172 ACK2V6_RS13360 WP_005478844.1 2877023..2878489(+) (rpoN/rpoN1) [Vibrio parahaemolyticus strain GTVSS-032]
MKPSLQLKLGQQLAMTPQLQQAIRLLQLSTLDLQQEIQEALDSNPLLEVEEGHEEPQANGEDKSALETADNSANEPTEIE
VPDSSDVIEKSEISSELEIDTTWDDVYSANTGSTGLALDDDMPVYQGETTESLHDYLMWQLDLTPFSETDRTIAIAIIDA
IDDYGYLTLSPEEIHESFDNEDIELDEVEAVRKRIQQFDPLGVASRNLQECLLLQLATFPEDTPWLAEAKMILADHIDHL
GNRDYKLVIKETKLKEADLREVLKLIQQLDPRPGSRITPDDTEYVIPDVSVFKDHGKWTVSINPDSIPKLKVNQQYAQLS
KGNSADSQYIRSNLQEAKWLIKSLESRNETLLKVARCIVEHQQDFFEYGEEAMKPMVLNDVALAVDMHESTISRVTTQKF
MHTPRGIFELKYFFSSHVSTDNGGECSSTAIRALIKKLVAAENTAKPLSDSKIAALLADQGIQVARRTIAKYRESLGIAP
SSQRKRLL

Nucleotide


Download         Length: 1467 bp        

>NTDB_id=968172 ACK2V6_RS13360 WP_005478844.1 2877023..2878489(+) (rpoN/rpoN1) [Vibrio parahaemolyticus strain GTVSS-032]
ATGAAACCTTCATTACAACTCAAGCTAGGTCAACAGTTAGCCATGACGCCACAGTTGCAACAAGCGATTCGCTTGCTGCA
GTTGTCGACTCTCGATCTTCAACAAGAAATCCAAGAAGCACTGGACTCAAACCCGCTATTGGAAGTTGAAGAAGGCCACG
AAGAACCTCAAGCAAATGGTGAAGACAAATCAGCACTCGAAACTGCTGACAACAGTGCCAACGAGCCAACAGAAATCGAA
GTTCCTGATAGTTCTGACGTCATCGAAAAGTCCGAAATCAGCTCAGAGCTTGAAATCGACACAACTTGGGATGACGTCTA
CAGCGCAAATACGGGCAGTACCGGTTTAGCGTTAGACGATGATATGCCGGTCTACCAAGGCGAAACCACAGAATCGCTGC
ACGATTACTTAATGTGGCAACTCGACTTAACGCCTTTCAGTGAAACCGACCGTACGATTGCCATTGCCATCATTGATGCG
ATTGACGATTACGGCTATCTGACCCTATCTCCTGAAGAGATTCACGAAAGCTTCGACAACGAAGATATTGAGTTGGATGA
AGTCGAAGCCGTGCGCAAACGCATCCAACAGTTTGACCCGCTTGGTGTGGCATCGCGGAACCTGCAAGAATGCTTACTCC
TGCAACTTGCAACCTTCCCAGAAGACACGCCTTGGCTTGCAGAAGCCAAAATGATTCTTGCCGATCACATCGATCACCTT
GGCAATCGCGATTACAAACTGGTCATCAAAGAAACTAAGCTAAAAGAAGCGGATCTACGCGAAGTATTAAAACTGATCCA
ACAGTTAGATCCTCGTCCGGGCAGCCGCATTACCCCAGACGACACAGAATACGTCATTCCGGACGTATCGGTATTTAAAG
ATCATGGGAAATGGACCGTTTCCATCAACCCTGACAGCATTCCAAAGTTAAAAGTTAACCAACAATACGCTCAATTAAGC
AAAGGCAACAGTGCGGATAGCCAGTACATTCGCAGCAATTTGCAAGAGGCAAAATGGTTAATTAAGAGCTTAGAGAGCAG
AAACGAGACGCTACTCAAAGTTGCAAGATGTATTGTTGAACATCAACAAGATTTCTTCGAGTATGGTGAAGAAGCCATGA
AGCCAATGGTACTCAATGATGTAGCCTTGGCGGTGGACATGCATGAATCCACAATATCTCGTGTTACGACACAAAAGTTC
ATGCATACGCCACGTGGCATTTTTGAATTGAAGTACTTCTTCTCCAGCCACGTCAGTACAGACAATGGCGGAGAATGTTC
GTCAACAGCAATCCGCGCACTCATTAAGAAACTGGTCGCGGCAGAGAATACTGCTAAACCACTTAGTGACAGTAAGATTG
CTGCTCTTCTGGCTGACCAAGGGATTCAGGTCGCAAGACGTACGATAGCTAAATATCGAGAATCCTTGGGTATTGCCCCT
TCAAGTCAGCGTAAACGCCTACTTTAA

Domains

Predicted by InterProScan.

Sigma-54, DNA binding domain (Sigma54_DBD)

(328-486)

Sigma-54 factor, core binding domain (Sigma54_CBD)

(129-316)

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

(4-49)


Secondary structure

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



3D structure

Source ID Structure
  AlphaFold DB Q87LE2

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

44.752

100

0.463

Multiple sequence alignment