Detailed information    

insolico Bioinformatically predicted

Overview

Name   rpoN/rpoN1   Type   Machinery gene
Locus tag   ACK2V4_RS12875 Genome accession   NZ_CP176646
Coordinates   2766647..2768113 (+) Length   488 a.a.
NCBI ID   WP_062855546.1    Uniprot ID   -
Organism   Vibrio parahaemolyticus strain GTVSS-031     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 2761647..2773113
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  ACK2V4_RS12850 (ACK2V4_12850) - 2762767..2763732 (+) 966 WP_005455122.1 calcium/sodium antiporter -
  ACK2V4_RS12855 (ACK2V4_12855) kdsD 2763769..2764740 (+) 972 WP_005484881.1 arabinose-5-phosphate isomerase KdsD -
  ACK2V4_RS12860 (ACK2V4_12860) lptC 2764831..2765394 (+) 564 WP_005467805.1 LPS export ABC transporter periplasmic protein LptC -
  ACK2V4_RS12865 (ACK2V4_12865) lptA 2765375..2765869 (+) 495 WP_005467803.1 lipopolysaccharide transport periplasmic protein LptA -
  ACK2V4_RS12870 (ACK2V4_12870) lptB 2765871..2766596 (+) 726 WP_005467801.1 LPS export ABC transporter ATP-binding protein -
  ACK2V4_RS12875 (ACK2V4_12875) rpoN/rpoN1 2766647..2768113 (+) 1467 WP_062855546.1 RNA polymerase factor sigma-54 Machinery gene
  ACK2V4_RS12880 (ACK2V4_12880) hpf 2768138..2768425 (+) 288 WP_005467451.1 ribosome hibernation promoting factor -
  ACK2V4_RS12885 (ACK2V4_12885) ptsN 2768428..2768874 (+) 447 WP_005467453.1 PTS IIA-like nitrogen regulatory protein PtsN -
  ACK2V4_RS12890 (ACK2V4_12890) rapZ 2768889..2769752 (+) 864 WP_005468663.1 RNase adapter RapZ -
  ACK2V4_RS12895 (ACK2V4_12895) - 2769755..2770030 (+) 276 WP_005468661.1 HPr family phosphocarrier protein -
  ACK2V4_RS12900 (ACK2V4_12900) mgtE 2770250..2771605 (+) 1356 WP_005468659.1 magnesium transporter -
  ACK2V4_RS12905 (ACK2V4_12905) pmbA 2771682..2773025 (-) 1344 WP_005459755.1 metalloprotease PmbA -

Sequence

Protein


Download         Length: 488 a.a.        Molecular weight: 54860.71 Da        Isoelectric Point: 4.3861

>NTDB_id=968085 ACK2V4_RS12875 WP_062855546.1 2766647..2768113(+) (rpoN/rpoN1) [Vibrio parahaemolyticus strain GTVSS-031]
MKPSLQLKLGQQLAMTPQLQQAIRLLQLSTLDLQQEIQEALDSNPLLEVEEGHEEPQANGEDKSALETADNSANEPTEIE
VPDSSDVIEKSEISSELEIDTTWDDVYSANTGSTGLALDDDMPVYQGETTESLHDYLMWQLDLTPFSETDRTIAIAIIDA
IDDYGYLTLSPEEIHESFDNEDIELDEVEAVRKRIQQFDPLGVASRNLQECLLLQLATFPEDTPWLAEAKMILADHIDHL
GNRDYKLVIKETKLKEAHLREVLKLIQQLDPRPGSRITPDDTEYVIPDVSVFKDHGKWTVSINPDSIPKLKVNQQYAQLG
KGNSADSQYIRSNLQEAKWLIKSLESRNETLLKVARCIVEHQQDFFEYGEEAMKPMVLNDVALAVDMHESTISRVTTQKF
MHTPRGIFELKYFFSSHVSTDNGGECSSTAIRALIKKLVAAENTAKPLSDSKIAALLADQGIQVARRTIAKYRESLGIAP
SSQRKRLL

Nucleotide


Download         Length: 1467 bp        

>NTDB_id=968085 ACK2V4_RS12875 WP_062855546.1 2766647..2768113(+) (rpoN/rpoN1) [Vibrio parahaemolyticus strain GTVSS-031]
ATGAAACCTTCATTACAACTCAAGCTAGGTCAACAGTTAGCCATGACGCCACAGTTGCAACAAGCGATTCGCTTGCTGCA
ACTGTCGACTCTCGATCTTCAACAAGAAATCCAAGAAGCGTTGGACTCAAACCCGCTATTGGAAGTTGAAGAAGGCCACG
AAGAACCTCAAGCAAATGGTGAAGACAAATCAGCACTCGAAACTGCTGACAACAGTGCCAACGAGCCAACAGAAATCGAA
GTTCCTGATAGTTCTGACGTCATCGAAAAATCCGAAATCAGCTCAGAGCTTGAAATCGACACAACTTGGGATGATGTCTA
CAGCGCAAATACGGGCAGTACCGGTTTAGCGTTAGACGATGATATGCCGGTCTACCAAGGCGAAACCACAGAATCGCTAC
ACGATTACTTAATGTGGCAACTCGACTTAACGCCTTTCAGTGAGACCGACCGTACGATTGCCATTGCCATCATTGATGCG
ATTGACGATTACGGCTACCTGACCCTATCTCCTGAAGAGATTCACGAAAGCTTCGACAACGAAGATATTGAGTTGGATGA
AGTCGAAGCCGTGCGCAAACGCATCCAACAGTTTGACCCGCTTGGTGTGGCATCGCGGAACCTGCAAGAATGCTTACTCC
TGCAACTTGCAACCTTCCCAGAAGACACGCCTTGGCTTGCAGAAGCCAAAATGATTCTTGCCGATCACATCGATCACCTT
GGTAATCGCGATTACAAACTGGTCATCAAAGAAACTAAGCTAAAAGAAGCGCATCTACGCGAAGTATTAAAACTGATCCA
ACAGTTAGATCCTCGTCCGGGCAGCCGCATTACCCCAGACGACACAGAATACGTCATTCCGGACGTATCGGTATTTAAAG
ATCATGGGAAATGGACCGTTTCCATCAACCCAGACAGCATTCCAAAGTTAAAAGTTAACCAACAATACGCTCAATTAGGC
AAAGGCAACAGTGCGGATAGCCAGTACATTCGCAGCAATTTGCAAGAGGCAAAATGGTTAATTAAGAGCTTAGAGAGCAG
AAACGAGACGCTACTCAAAGTTGCAAGATGTATTGTTGAACATCAACAAGATTTCTTCGAGTATGGTGAAGAAGCCATGA
AGCCAATGGTACTCAATGATGTAGCCTTGGCGGTGGACATGCATGAATCCACAATATCTCGTGTTACGACACAAAAGTTC
ATGCATACGCCACGTGGCATTTTTGAATTGAAGTACTTCTTCTCCAGCCACGTCAGTACAGACAATGGCGGAGAATGTTC
GTCAACAGCAATCCGCGCACTCATTAAGAAACTGGTCGCGGCAGAGAATACTGCTAAACCACTTAGTGACAGTAAGATTG
CTGCTCTTCTGGCTGACCAAGGGATTCAGGTCGCAAGACGTACGATAGCTAAATATCGCGAATCCTTGGGTATTGCCCCT
TCAAGTCAGCGTAAACGCCTACTTTAA

Domains

Predicted by InterProScan.

Sigma-54, DNA binding domain (Sigma54_DBD)

(328-486)

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

(4-49)

Sigma-54 factor, core binding domain (Sigma54_CBD)

(129-316)


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

44.444

100

0.459

Multiple sequence alignment