Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   HQN81_RS18685 Genome accession   NZ_CP053787
Coordinates   3860036..3860845 (-) Length   269 a.a.
NCBI ID   WP_001469316.1    Uniprot ID   Q8VPD1
Organism   Escherichia coli isolate J31     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 3855036..3865845
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  HQN81_RS18670 (HQN81_18680) gspD 3856493..3858553 (-) 2061 WP_000498824.1 type II secretion system secretin GspD -
  HQN81_RS18675 (HQN81_18685) gspC 3858583..3859542 (-) 960 WP_001549326.1 type II secretion system protein GspC -
  HQN81_RS18680 (HQN81_18690) gspS2 3859560..3859970 (-) 411 WP_001389459.1 type II secretion system pilot lipoprotein GspS-beta -
  HQN81_RS18685 (HQN81_18695) pilD 3860036..3860845 (-) 810 WP_001469316.1 prepilin peptidase PppA Machinery gene
  HQN81_RS18690 (HQN81_18700) sslE 3861043..3865602 (-) 4560 WP_001469318.1 lipoprotein metalloprotease SslE -

Sequence

Protein


Download         Length: 269 a.a.        Molecular weight: 29480.17 Da        Isoelectric Point: 8.3829

>NTDB_id=394338 HQN81_RS18685 WP_001469316.1 3860036..3860845(-) (pilD) [Escherichia coli isolate J31]
MLFDVFQQYPAAMPVLATVGGLIIGSFLNVVIWRYPIMLRQQMAEFHGEMPSVQSKISLALPRSHCPHCQQTIRIRDNIP
LLSWLMLKGRCRDCQAKISKRYPLVELLTALAFLLASLVWPESGWALAVMILSAWLIAASVIDLDHQWLPDVFTQGVLWT
GLIAAWAQQSPLTLQDAVTGVLVGFIAFYSLRWIAGIVLRKEALGMGDVLLFAALGSWVGPLSLPNVALIASCCGLIYAV
ITKRGSTTLPFGPCLSLGGIATIYLQALF

Nucleotide


Download         Length: 810 bp        

>NTDB_id=394338 HQN81_RS18685 WP_001469316.1 3860036..3860845(-) (pilD) [Escherichia coli isolate J31]
ATGCTTTTTGATGTTTTTCAGCAATACCCTGCGGCGATGCCCGTCCTGGCAACCGTCGGAGGATTGATCATCGGCAGTTT
TTTGAATGTGGTGATTTGGCGTTACCCCATCATGCTGCGCCAACAAATGGCGGAGTTTCATGGTGAAATGCCGAGTGTGC
AGTCAAAAATAAGCCTTGCGCTACCGCGTTCGCACTGCCCACATTGTCAGCAGACCATCCGGATACGTGACAATATTCCG
CTGCTCTCCTGGCTGATGCTCAAAGGGCGCTGCCGTGATTGTCAGGCGAAAATCAGCAAGCGTTATCCGTTGGTGGAGTT
ATTGACGGCACTCGCTTTTTTGCTGGCGAGTCTGGTCTGGCCGGAAAGTGGATGGGCGCTGGCGGTGATGATATTATCCG
CCTGGCTGATTGCCGCGAGCGTCATTGACCTCGATCACCAATGGCTGCCCGATGTTTTTACTCAGGGCGTATTGTGGACG
GGACTGATTGCGGCATGGGCGCAGCAGAGCCCGCTCACGCTACAAGATGCAGTTACCGGCGTCCTGGTGGGGTTTATCGC
TTTTTACTCCCTGCGCTGGATAGCCGGAATAGTTCTGCGTAAAGAAGCATTAGGCATGGGCGATGTATTATTGTTCGCTG
CGTTAGGTAGTTGGGTGGGGCCGTTATCACTGCCCAATGTTGCTTTAATCGCATCATGCTGCGGCCTGATATATGCCGTT
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 Q8VPD1

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

46.067

99.257

0.457
  pilD Vibrio campbellii strain DS40M4

42.697

99.257

0.424
  pilD Neisseria gonorrhoeae MS11

39.3

95.539

0.375
  pilD Acinetobacter nosocomialis M2

38.113

98.513

0.375
  pilD Acinetobacter baumannii D1279779

37.736

98.513

0.372