Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   APT59_RS17780 Genome accession   NZ_CP013987
Coordinates   3902373..3904067 (-) Length   564 a.a.
NCBI ID   WP_059316075.1    Uniprot ID   A0A0U4XWK3
Organism   Pseudomonas oryzihabitans strain USDA-ARS-USMARC-56511     
Function   power the assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 3897373..3909067
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  APT59_RS17755 (APT59_17755) - 3898618..3899115 (+) 498 WP_059316071.1 hypothetical protein -
  APT59_RS17760 (APT59_17760) yacG 3899271..3899468 (-) 198 WP_007160931.1 DNA gyrase inhibitor YacG -
  APT59_RS17765 (APT59_17765) coaE 3899465..3900076 (-) 612 WP_059316072.1 dephospho-CoA kinase -
  APT59_RS17770 (APT59_17770) pilD 3900073..3900945 (-) 873 WP_059316073.1 prepilin peptidase Machinery gene
  APT59_RS17775 (APT59_17775) pilC 3900945..3902162 (-) 1218 WP_059316074.1 type II secretion system F family protein Machinery gene
  APT59_RS17780 (APT59_17780) pilB 3902373..3904067 (-) 1695 WP_059316075.1 type IV-A pilus assembly ATPase PilB Machinery gene
  APT59_RS22265 - 3904280..3904714 (+) 435 WP_082696383.1 pilin -
  APT59_RS17785 (APT59_17785) - 3904850..3905848 (-) 999 WP_059316076.1 SDR family oxidoreductase -
  APT59_RS17795 (APT59_17795) cyoA 3906622..3907545 (+) 924 WP_059316077.1 ubiquinol oxidase subunit II -

Sequence

Protein


Download         Length: 564 a.a.        Molecular weight: 62496.88 Da        Isoelectric Point: 5.6079

>NTDB_id=166873 APT59_RS17780 WP_059316075.1 3902373..3904067(-) (pilB) [Pseudomonas oryzihabitans strain USDA-ARS-USMARC-56511]
MNETVMLSGLARQLVDAQLLAEAVAQQAVVKAKQAKVPLVTYLVQQRLVQSRPLAELAAQEFGVPFLDLSAIDKEQLPKD
IVNEKLMQQHHFLPLSKRGNKLFIALSDPTNQQAINDVSFGSKLAVEVVLVEDDKLHQAIERYLDTGTGGLDLGDIDLDL
ETEGGERPQEAVAGTDADDAPVVKFVNKMLLDAIKKGSSDLHFEPYEKMYRVRFRTDGILHEAARPPVQLVSRISARLKV
MSNMDISERRKPQDGRVKLKVSKTKSIDFRVNTLPTLWGEKIVMRILDSSSAQMGIDALGYEDVQKELYLQALKQPQGMI
LVTGPTGSGKTVSLYTGLNILNTEDINISTAEDPVEINLEGINQVNVNPRQGLDFSQALRAFLRQDPDVIMVGEIRDLET
AEIAIKAAQTGHMVMSTLHTNSAAETLTRLRNMGVPAFNLATSVNLIIAQRLARKLCNKCKRVHEVPREALLAEGFREEE
IGSFTLYQPIGCEDCNAGYRGRVGIYEVVKVTPALQQMIMEEGNSIEIAARMRMEGFNDLRRSGLVKAMQGITSLEEINR
VTKD

Nucleotide


Download         Length: 1695 bp        

>NTDB_id=166873 APT59_RS17780 WP_059316075.1 3902373..3904067(-) (pilB) [Pseudomonas oryzihabitans strain USDA-ARS-USMARC-56511]
ATGAACGAGACGGTAATGCTGTCGGGACTAGCACGGCAATTGGTGGATGCGCAGTTGCTGGCAGAGGCGGTAGCCCAGCA
GGCGGTGGTCAAGGCCAAGCAGGCCAAGGTGCCGCTGGTGACCTATCTCGTTCAACAGCGGTTGGTGCAGAGCCGGCCTC
TGGCTGAACTAGCGGCTCAGGAATTCGGCGTGCCCTTTCTCGATTTGTCGGCCATCGACAAGGAGCAGTTGCCCAAGGAC
ATCGTCAACGAAAAGTTGATGCAGCAGCATCACTTCCTGCCATTGAGCAAGAGAGGCAACAAGCTCTTCATCGCGCTGTC
TGACCCGACCAATCAGCAGGCCATCAACGATGTGTCCTTTGGCAGCAAGCTGGCCGTCGAGGTCGTGCTGGTCGAAGACG
ATAAGCTGCACCAGGCCATCGAGCGGTATCTGGATACTGGCACCGGTGGTTTGGATCTGGGCGATATCGATCTCGACCTG
GAAACCGAGGGCGGTGAGCGACCCCAGGAAGCCGTAGCCGGTACCGATGCTGACGATGCACCGGTAGTGAAATTCGTCAA
CAAGATGCTGCTGGATGCTATCAAGAAGGGCTCCTCCGACCTGCACTTCGAACCCTACGAAAAGATGTATCGGGTGCGCT
TTCGAACTGATGGCATTCTGCACGAAGCCGCGCGGCCACCCGTGCAGCTGGTGTCACGGATCTCGGCGCGGCTCAAGGTG
ATGTCCAATATGGATATTTCGGAGCGCCGTAAACCTCAGGATGGCCGGGTTAAGCTCAAGGTGTCCAAGACCAAGTCCAT
CGACTTCCGGGTCAACACCCTGCCCACCCTCTGGGGTGAGAAGATAGTGATGCGGATTCTGGACTCCTCCAGCGCCCAGA
TGGGGATCGATGCCCTGGGCTACGAAGATGTACAGAAGGAGCTCTACCTGCAGGCGCTCAAGCAGCCGCAGGGGATGATC
CTGGTGACCGGGCCGACTGGTTCGGGCAAGACGGTATCCCTCTATACCGGCCTCAATATCCTCAATACCGAAGACATCAA
TATTTCCACCGCAGAGGATCCGGTGGAGATCAACTTGGAAGGCATCAACCAAGTCAACGTCAATCCGCGTCAGGGACTCG
ACTTCTCTCAGGCGCTACGAGCCTTCCTGCGTCAGGATCCCGACGTGATCATGGTCGGTGAGATCCGCGACCTGGAAACG
GCGGAAATTGCCATCAAGGCAGCCCAGACCGGCCACATGGTGATGTCGACCCTGCACACCAACAGCGCGGCGGAAACCCT
GACGCGTCTACGTAACATGGGGGTGCCCGCCTTCAATTTGGCGACCTCGGTCAACCTCATCATCGCCCAGCGCCTGGCGC
GCAAACTATGCAACAAGTGCAAGAGAGTCCATGAGGTGCCCCGTGAGGCATTGTTGGCCGAAGGCTTTCGCGAGGAAGAG
ATCGGGAGTTTCACCCTTTACCAGCCCATCGGCTGCGAAGACTGCAATGCGGGGTATCGCGGGCGAGTGGGGATCTACGA
GGTGGTGAAGGTCACGCCAGCGCTGCAGCAGATGATCATGGAGGAGGGCAACTCCATCGAGATCGCGGCGCGGATGCGGA
TGGAAGGTTTCAATGATCTGCGGCGGTCGGGGCTGGTGAAGGCGATGCAGGGGATTACCAGTCTGGAAGAGATCAATCGG
GTGACCAAGGACTAA

Domains

Predicted by InterproScan.

Type II/IV secretion system protein (T2SSE)

(188-455)

Type II secretion system (T2SS), protein E, N-terminal domain (MshEN)

(43-146)


Secondary structure

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



3D structure

Source ID Structure
  AlphaFold DB A0A0U4XWK3

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
  pilB Acinetobacter baumannii D1279779

59.786

99.645

0.596
  pilB Acinetobacter baylyi ADP1

59.537

99.468

0.592
  pilB Legionella pneumophila strain ERS1305867

54.912

100

0.555
  pilB Vibrio cholerae strain A1552

50.088

100

0.502
  pilB Vibrio campbellii strain DS40M4

50

100

0.5
  pilB Vibrio parahaemolyticus RIMD 2210633

49.554

99.468

0.493
  pilF Neisseria gonorrhoeae MS11

48.845

99.823

0.488
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

38.857

93.085

0.362

Multiple sequence alignment