Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   LCE25_RS03785 Genome accession   NZ_CP083888
Coordinates   783126..783935 (+) Length   269 a.a.
NCBI ID   WP_001297673.1    Uniprot ID   Q8VRN2
Organism   Escherichia coli strain NDM1     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 778126..788935
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  LCE25_RS03780 (LCE25_03780) sslE 778413..782978 (+) 4566 WP_001034516.1 lipoprotein metalloprotease SslE -
  LCE25_RS03785 (LCE25_03785) pilD 783126..783935 (+) 810 WP_001297673.1 prepilin peptidase PppA Machinery gene
  LCE25_RS03790 (LCE25_03790) gspS2 784001..784411 (+) 411 WP_001324279.1 type II secretion system pilot lipoprotein GspS-beta -
  LCE25_RS03795 (LCE25_03795) gspC 784429..785388 (+) 960 WP_000135067.1 type II secretion system protein GspC -
  LCE25_RS03800 (LCE25_03800) gspD 785418..787478 (+) 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=533668 LCE25_RS03785 WP_001297673.1 783126..783935(+) (pilD) [Escherichia coli strain NDM1]
MLFDVFQQYPAAMPILATVGGLIIGSFLNVVIWRYPIMLRQQMAEFHGEMPSAQSKISLALPRSHCPHCQQTIRIRDNIP
LLSWLMLKGRCRDCQAKISKRYPLVELLTALAFLLASLVWPESGWALAVMILSAWLIAASVIDLDHQWLPDVFTQGVLWT
GLIAAWAQQSPLTLQDAVTGVLVGFIAFYSLRWIAGVVLRKEALGMGDVLLFAALGSWVGPLSLPNVALIASCCGLIYAV
ITKRGSTTLPFGPCLSLGGIATIYLQALF

Nucleotide


Download         Length: 810 bp        

>NTDB_id=533668 LCE25_RS03785 WP_001297673.1 783126..783935(+) (pilD) [Escherichia coli strain NDM1]
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