Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   AABJ98_RS10960 Genome accession   NZ_AP027599
Coordinates   2207018..2207827 (-) Length   269 a.a.
NCBI ID   WP_001469316.1    Uniprot ID   Q8VPD1
Organism   Escherichia coli strain LR-71-1     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 2202018..2212827
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  AABJ98_RS10935 (VEE28_21290) - 2202698..2203390 (-) 693 Protein_2142 type II secretion system protein GspD -
  AABJ98_RS10940 (VEE28_21310) - 2203447..2204144 (+) 698 WP_095033700.1 IS1-like element IS1B family transposase -
  AABJ98_RS10945 (VEE28_21320) - 2204156..2205535 (-) 1380 Protein_2144 secretin N-terminal domain-containing protein -
  AABJ98_RS10950 (VEE28_21330) gspC 2205565..2206524 (-) 960 WP_001549326.1 type II secretion system protein GspC -
  AABJ98_RS10955 (VEE28_21340) gspS2 2206542..2206952 (-) 411 WP_001389459.1 type II secretion system pilot lipoprotein GspS-beta -
  AABJ98_RS10960 (VEE28_21350) pilD 2207018..2207827 (-) 810 WP_001469316.1 prepilin peptidase PppA Machinery gene
  AABJ98_RS10965 (VEE28_21360) sslE 2208025..2212584 (-) 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=87827 AABJ98_RS10960 WP_001469316.1 2207018..2207827(-) (pilD) [Escherichia coli strain LR-71-1]
MLFDVFQQYPAAMPVLATVGGLIIGSFLNVVIWRYPIMLRQQMAEFHGEMPSVQSKISLALPRSHCPHCQQTIRIRDNIP
LLSWLMLKGRCRDCQAKISKRYPLVELLTALAFLLASLVWPESGWALAVMILSAWLIAASVIDLDHQWLPDVFTQGVLWT
GLIAAWAQQSPLTLQDAVTGVLVGFIAFYSLRWIAGIVLRKEALGMGDVLLFAALGSWVGPLSLPNVALIASCCGLIYAV
ITKRGSTTLPFGPCLSLGGIATIYLQALF

Nucleotide


Download         Length: 810 bp        

>NTDB_id=87827 AABJ98_RS10960 WP_001469316.1 2207018..2207827(-) (pilD) [Escherichia coli strain LR-71-1]
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

Multiple sequence alignment