Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   IMP05_RS19325 Genome accession   NZ_CP062910
Coordinates   4014467..4015276 (+) Length   269 a.a.
NCBI ID   WP_001297673.1    Uniprot ID   Q8VRN2
Organism   Escherichia coli O112ab:H8 strain Res13-Lact-EA06-22     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 4009467..4020276
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  IMP05_RS19320 (IMP05_19325) sslE 4009751..4014319 (+) 4569 WP_001034527.1 lipoprotein metalloprotease SslE -
  IMP05_RS19325 (IMP05_19330) pilD 4014467..4015276 (+) 810 WP_001297673.1 prepilin peptidase PppA Machinery gene
  IMP05_RS19330 (IMP05_19335) gspS2 4015342..4015752 (+) 411 WP_001324279.1 type II secretion system pilot lipoprotein GspS-beta -
  IMP05_RS19335 (IMP05_19340) gspC 4015770..4016729 (+) 960 WP_000135067.1 type II secretion system protein GspC -
  IMP05_RS19340 (IMP05_19345) gspD 4016759..4018819 (+) 2061 WP_000498824.1 type II secretion system secretin GspD -

Sequence

Protein


Download         Length: 269 a.a.        Molecular weight: 29452.12 Da        Isoelectric Point: 8.3829

>NTDB_id=435778 IMP05_RS19325 WP_001297673.1 4014467..4015276(+) (pilD) [Escherichia coli O112ab:H8 strain Res13-Lact-EA06-22]
MLFDVFQQYPAAMPILATVGGLIIGSFLNVVIWRYPIMLRQQMAEFHGEMPSAQSKISLALPRSHCPHCQQTIRIRDNIP
LLSWLMLKGRCRDCQAKISKRYPLVELLTALAFLLASLVWPESGWALAVMILSAWLIAASVIDLDHQWLPDVFTQGVLWT
GLIAAWAQQSPLTLQDAVTGVLVGFIAFYSLRWIAGVVLRKEALGMGDVLLFAALGSWVGPLSLPNVALIASCCGLIYAV
ITKRGSTTLPFGPCLSLGGIATIYLQALF

Nucleotide


Download         Length: 810 bp        

>NTDB_id=435778 IMP05_RS19325 WP_001297673.1 4014467..4015276(+) (pilD) [Escherichia coli O112ab:H8 strain Res13-Lact-EA06-22]
ATGCTTTTTGATGTTTTTCAGCAATACCCCGCGGCGATGCCCATACTGGCAACCGTCGGAGGATTGATCATCGGCAGTTT
TTTGAATGTGGTGATTTGGCGTTACCCCATCATGCTGCGCCAACAAATGGCGGAGTTTCATGGTGAAATGCCGAGTGCGC
AGTCAAAAATAAGCCTTGCGCTACCGCGTTCCCACTGCCCACATTGTCAGCAGACCATCCGGATACGTGACAATATTCCG
CTGCTCTCCTGGCTGATGCTCAAAGGGCGCTGCCGTGATTGTCAGGCGAAAATCAGCAAGCGTTATCCGCTGGTGGAGTT
ATTGACGGCACTCGCTTTTTTGCTGGCGAGTCTGGTCTGGCCGGAAAGTGGATGGGCGCTGGCGGTGATGATATTATCCG
CCTGGCTGATTGCCGCGAGCGTCATTGACCTCGATCACCAATGGCTGCCCGATGTTTTTACTCAGGGCGTATTGTGGACG
GGACTGATTGCGGCATGGGCGCAGCAGAGCCCGCTCACGCTACAAGATGCAGTTACCGGCGTCCTGGTGGGGTTTATCGC
TTTTTACTCCCTGCGCTGGATAGCCGGAGTAGTTCTGCGTAAAGAAGCATTAGGCATGGGCGATGTATTATTGTTCGCTG
CGTTAGGTAGTTGGGTGGGGCCGTTGTCGCTACCCAATGTTGCTTTAATCGCATCATGCTGCGGCCTGATATATGCCGTT
ATTACAAAAAGAGGATCAACCACACTGCCTTTTGGACCGTGTTTAAGTCTGGGCGGTATAGCAACAATTTATCTACAGGC
ATTGTTTTAA

Domains

Predicted by InterProScan.

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(21-118)

Type IV leader peptidase family (Peptidase_A24)

(130-239)


Secondary structure

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



3D structure

Source ID Structure
  AlphaFold DB Q8VRN2

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

45.693

99.257

0.454
  pilD Vibrio campbellii strain DS40M4

42.322

99.257

0.42
  pilD Acinetobacter nosocomialis M2

38.868

98.513

0.383
  pilD Acinetobacter baumannii D1279779

38.491

98.513

0.379
  pilD Neisseria gonorrhoeae MS11

39.3

95.539

0.375