Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   IGI29_RS04640 Genome accession   NZ_CP075474
Coordinates   817813..818583 (+) Length   256 a.a.
NCBI ID   WP_156262350.1    Uniprot ID   -
Organism   Escherichia coli strain NT1N28     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 812813..823583
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  IGI29_RS04635 sslE 813047..817615 (+) 4569 WP_193115113.1 lipoprotein metalloprotease SslE -
  IGI29_RS04640 pilD 817813..818583 (+) 771 WP_156262350.1 prepilin peptidase PppA Machinery gene
  IGI29_RS04645 - 818617..819314 (+) 698 WP_094096600.1 IS1-like element IS1A family transposase -
  IGI29_RS04650 gspC 819328..820050 (+) 723 Protein_773 type II secretion system protein GspC -
  IGI29_RS23535 - 820080..821606 (+) 1527 WP_225904512.1 ATPase, T2SS/T4P/T4SS family -
  IGI29_RS04665 gspF 821606..822829 (+) 1224 WP_001173455.1 type II secretion system inner membrane protein GspF -
  IGI29_RS04670 gspG 822846..823301 (+) 456 WP_001087296.1 type II secretion system major pseudopilin GspG -

Sequence

Protein


Download         Length: 256 a.a.        Molecular weight: 28136.54 Da        Isoelectric Point: 8.4885

>NTDB_id=498280 IGI29_RS04640 WP_156262350.1 817813..818583(+) (pilD) [Escherichia coli strain NT1N28]
MLFDVFQQYPAAMPVLATVGGLIIGSFLNVVIWRYPIMLRQQMAEFHGEMPSAQSKISLALPRSHCPHCQQTIRVRDNIP
LLSWLMLKGRCRDCQAKISKRYPLVELLTALAFLLASLVWPESGWGLAVMILSAWLIAASVIDLDHQWLPDVFTQGVLWT
GLIAAWAQQSPLTLQDAVTGVLVGFITFYSLRWIAGIVLRKEALGMGDVLLFAALGGWVGALSLPNVALIASCCGLIYAV
ITKRGSTTLPVMLPTY

Nucleotide


Download         Length: 771 bp        

>NTDB_id=498280 IGI29_RS04640 WP_156262350.1 817813..818583(+) (pilD) [Escherichia coli strain NT1N28]
ATGCTTTTTGATGTTTTTCAGCAATACCCTGCGGCGATGCCCGTCCTGGCAACCGTCGGAGGATTGATTATAGGTAGTTT
TTTGAATGTGGTGATTTGGCGTTACCCCATCATGCTGCGCCAACAAATGGCGGAGTTTCACGGTGAAATGCCGAGTGCGC
AGTCAAAAATAAGCCTGGCGCTGCCACGTTCGCACTGTCCACATTGTCAGCAGACCATCCGCGTTCGTGACAATATTCCG
CTGCTCTCCTGGCTGATGCTCAAAGGGCGCTGCCGCGACTGTCAGGCGAAAATCAGCAAGCGTTATCCGCTGGTGGAGTT
ATTGACAGCACTTGCTTTTTTGCTGGCGAGTCTGGTCTGGCCAGAAAGTGGATGGGGGCTGGCGGTGATGATATTATCCG
CCTGGCTGATTGCCGCGAGCGTCATCGACCTCGATCACCAATGGCTGCCCGATGTTTTTACTCAGGGCGTATTGTGGACA
GGACTGATTGCGGCATGGGCGCAGCAGAGTCCGCTCACGCTACAAGATGCAGTCACCGGCGTCCTGGTGGGATTTATCAC
TTTTTACTCTCTGCGTTGGATAGCCGGAATAGTTCTGCGTAAAGAAGCATTAGGCATGGGCGATGTATTACTTTTCGCCG
CGTTAGGTGGCTGGGTGGGGGCATTGTCGCTGCCCAATGTTGCTTTAATCGCCTCATGCTGCGGCCTGATATATGCCGTT
ATTACAAAAAGAGGATCAACCACACTGCCGGTGATGCTGCCAACTTACTGA

Domains

Predicted by InterProScan.

Type IV leader peptidase family (Peptidase_A24)

(130-239)

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(21-118)


Secondary structure

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



3D structure

Source ID Structure

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

46.964

96.484

0.453
  pilD Vibrio campbellii strain DS40M4

42.915

96.484

0.414
  pilD Neisseria gonorrhoeae MS11

40

93.75

0.375
  pilD Acinetobacter nosocomialis M2

39.344

95.313

0.375
  pilD Acinetobacter baumannii D1279779

38.934

95.313

0.371