Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   LPH28_RS03810 Genome accession   NZ_AP025209
Coordinates   787872..788681 (+) Length   269 a.a.
NCBI ID   WP_001338812.1    Uniprot ID   -
Organism   Escherichia coli strain 2017.06.04CC     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 782872..793681
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  LPH28_RS03805 (VEGS18_A07470) sslE 783106..787674 (+) 4569 WP_001547021.1 lipoprotein metalloprotease SslE -
  LPH28_RS03810 (VEGS18_A07480) pilD 787872..788681 (+) 810 WP_001338812.1 prepilin peptidase PppA Machinery gene
  LPH28_RS03815 (VEGS18_A07490) gspS2 788747..789157 (+) 411 WP_001460060.1 type II secretion system pilot lipoprotein GspS-beta -
  LPH28_RS03820 (VEGS18_A07500) gspC 789175..790134 (+) 960 WP_001352155.1 type II secretion system protein GspC -
  LPH28_RS03825 (VEGS18_A07510) gspD 790164..792224 (+) 2061 WP_000498824.1 type II secretion system secretin GspD -

Sequence

Protein


Download         Length: 269 a.a.        Molecular weight: 29398.02 Da        Isoelectric Point: 8.3829

>NTDB_id=76824 LPH28_RS03810 WP_001338812.1 787872..788681(+) (pilD) [Escherichia coli strain 2017.06.04CC]
MLFDVFQQYPAAMPVLATVGGLIIGSFLNVVIWRYPIMLRQQMAEFHGEMPSAQSKISLALPRSHCPHCQQTIRVRDNIP
LLSWLMLKGRCRDCQAKISKRYPLVELLTALAFLLASLVWPESGWGLAVMILSAWLIAASVIDLDHQWLPDVFTQGVLWT
GLIAAWAQQSPLTLQDAVTGVLVGFITFYSLRWIAGIVLRKEALGMGDVLLFAALGGWVGALSLPNVALIASCCGLIYAV
ITKRGSTTLPFGPCLSLGGIATLYLQALF

Nucleotide


Download         Length: 810 bp        

>NTDB_id=76824 LPH28_RS03810 WP_001338812.1 787872..788681(+) (pilD) [Escherichia coli strain 2017.06.04CC]
ATGCTTTTTGATGTTTTTCAGCAATACCCTGCGGCGATGCCCGTCCTGGCAACCGTCGGAGGATTGATTATAGGTAGTTT
TTTGAATGTGGTGATTTGGCGTTACCCCATCATGCTGCGCCAACAAATGGCGGAGTTTCACGGTGAAATGCCGAGTGCGC
AGTCAAAAATAAGCCTGGCGCTGCCACGTTCGCACTGTCCACATTGTCAGCAGACCATCCGCGTTCGTGACAATATTCCG
CTGCTCTCCTGGCTGATGCTCAAAGGGCGCTGCCGCGACTGTCAGGCGAAAATCAGCAAGCGTTATCCGCTGGTGGAGTT
ATTGACAGCACTTGCTTTTTTGCTGGCGAGTCTGGTCTGGCCAGAAAGTGGATGGGGGCTGGCGGTGATGATATTATCCG
CCTGGCTGATTGCCGCGAGCGTCATCGACCTCGATCACCAATGGCTGCCCGATGTTTTTACTCAGGGCGTATTGTGGACA
GGACTGATTGCGGCATGGGCGCAGCAGAGTCCGCTCACGCTACAAGATGCAGTCACCGGCGTCCTGGTGGGATTTATCAC
TTTTTACTCTCTGCGTTGGATAGCCGGAATAGTTCTGCGTAAAGAAGCATTAGGCATGGGCGATGTATTACTTTTCGCCG
CGTTAGGTGGCTGGGTGGGGGCATTGTCGCTGCCCAATGTTGCTTTAATCGCCTCATGCTGCGGCCTGATATATGCCGTT
ATTACAAAAAGAGGATCAACCACACTGCCTTTTGGACCGTGTTTAAGTCTGGGCGGTATAGCAACACTTTATCTACAGGC
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

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

42.066

100

0.424
  pilD Neisseria gonorrhoeae MS11

39.3

95.539

0.375
  pilD Acinetobacter nosocomialis M2

37.736

98.513

0.372
  pilD Acinetobacter baumannii D1279779

37.358

98.513

0.368

Multiple sequence alignment