Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   E6A55_RS16620 Genome accession   NZ_CP039287
Coordinates   3516881..3517795 (+) Length   304 a.a.
NCBI ID   WP_011616083.1    Uniprot ID   Q0K6P0
Organism   Cupriavidus necator H16     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 3511881..3522795
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  E6A55_RS16600 (E6A55_16585) - 3513073..3513393 (-) 321 WP_062804630.1 helix-turn-helix domain-containing protein -
  E6A55_RS16610 (E6A55_16595) pilF 3513817..3515541 (+) 1725 WP_011616081.1 type IV-A pilus assembly ATPase PilB Machinery gene
  E6A55_RS16615 (E6A55_16600) - 3515606..3516877 (+) 1272 WP_011616082.1 type II secretion system F family protein -
  E6A55_RS16620 (E6A55_16605) pilD 3516881..3517795 (+) 915 WP_011616083.1 prepilin peptidase Machinery gene
  E6A55_RS16625 (E6A55_16610) coaE 3517859..3518485 (+) 627 WP_010814753.1 dephospho-CoA kinase -
  E6A55_RS16630 (E6A55_16615) zapD 3518695..3519453 (+) 759 WP_011616084.1 cell division protein ZapD -
  E6A55_RS16635 (E6A55_16620) - 3519471..3519659 (+) 189 WP_010814755.1 DNA gyrase inhibitor YacG -
  E6A55_RS16640 (E6A55_16625) - 3519690..3521729 (-) 2040 WP_010814756.1 OPT family oligopeptide transporter -
  E6A55_RS16645 (E6A55_16630) - 3521823..3522269 (-) 447 WP_011616085.1 NUDIX domain-containing protein -

Sequence

Protein


Download         Length: 304 a.a.        Molecular weight: 32407.54 Da        Isoelectric Point: 7.6360

>NTDB_id=357889 E6A55_RS16620 WP_011616083.1 3516881..3517795(+) (pilD) [Cupriavidus necator H16]
MLSSWSASPYPSPASTGGAPLVEALAALPPAFLVAAAALLGLVVGSFLNVVIHRMPRMMERDEANYIAELRGDPLPYPGR
YNLMVPRSACPHCGHAIAPWENVPVLSYLFLRGRCSACQAPISVRYPLVELACGVLSALAAWRFGPGGQALAALVLVWAL
LALTMIDADTQLLPDQITLPLLWLGLLLNLGGVFVTLPDAVIGAAAGYLVLWTAYWLFRLVRGKEGMGFGDFKLMAALGA
WLGWQALPALVLLSSVVGVLFGLANIALRRQERDTPFPFGPFIALAGVVVLLFGPGVLPLFAWP

Nucleotide


Download         Length: 915 bp        

>NTDB_id=357889 E6A55_RS16620 WP_011616083.1 3516881..3517795(+) (pilD) [Cupriavidus necator H16]
ATGTTGTCTTCGTGGTCTGCTTCTCCCTACCCTTCGCCGGCCTCCACCGGCGGCGCGCCGCTGGTGGAGGCACTGGCGGC
GTTGCCGCCCGCCTTCCTGGTGGCGGCCGCCGCGCTGCTCGGGCTGGTGGTCGGCAGCTTCCTCAATGTGGTCATCCACC
GGATGCCGCGCATGATGGAGCGCGACGAGGCCAACTATATCGCCGAGCTGCGCGGCGACCCGCTGCCCTACCCCGGCCGC
TACAACCTGATGGTGCCGCGCTCGGCCTGCCCGCATTGCGGCCACGCGATTGCGCCGTGGGAGAACGTGCCGGTGCTGAG
CTACCTGTTCCTGCGCGGGCGCTGCTCGGCGTGCCAGGCGCCGATCAGTGTGCGCTATCCGCTGGTCGAGCTGGCCTGTG
GCGTGCTGAGCGCGCTGGCGGCGTGGCGCTTCGGCCCCGGCGGACAGGCCCTGGCCGCGCTGGTGCTGGTGTGGGCGCTG
CTGGCGCTGACCATGATCGATGCCGATACGCAACTGCTGCCGGACCAGATCACCCTGCCGCTGTTGTGGCTGGGCCTGCT
GCTGAACCTGGGCGGCGTGTTCGTGACGCTGCCCGACGCCGTGATCGGCGCGGCTGCCGGCTACCTGGTGCTGTGGACGG
CCTACTGGCTGTTCCGGCTGGTGCGCGGCAAGGAAGGCATGGGCTTTGGCGACTTCAAGCTGATGGCGGCGCTGGGCGCC
TGGCTCGGCTGGCAGGCGCTGCCGGCGCTGGTGCTGCTGTCGTCGGTGGTCGGCGTGCTGTTCGGGCTGGCCAATATCGC
GCTGCGCCGGCAGGAACGCGACACGCCCTTCCCGTTCGGGCCCTTCATCGCGCTCGCCGGCGTGGTGGTGCTGCTGTTCG
GCCCCGGCGTGCTGCCGCTGTTTGCATGGCCATGA

Domains

Predicted by InterproScan.

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(39-144)

Type IV leader peptidase family (Peptidase_A24)

(154-263)


Secondary structure

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



3D structure

Source ID Structure
  AlphaFold DB Q0K6P0

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
  pilD Vibrio cholerae strain A1552

55.849

87.171

0.487
  pilD Vibrio campbellii strain DS40M4

52.19

90.132

0.47
  pilD Neisseria gonorrhoeae MS11

47.887

93.421

0.447
  pilD Acinetobacter baumannii D1279779

47.601

89.145

0.424
  pilD Acinetobacter nosocomialis M2

47.232

89.145

0.421

Multiple sequence alignment