Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   LMF34_RS13750 Genome accession   NZ_CP086678
Coordinates   2877827..2878636 (+) Length   269 a.a.
NCBI ID   WP_000464637.1    Uniprot ID   -
Organism   Escherichia coli strain EFF60     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 2872827..2883636
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  LMF34_RS13745 sslE 2873132..2877697 (+) 4566 WP_248422642.1 lipoprotein metalloprotease SslE -
  LMF34_RS13750 pilD 2877827..2878636 (+) 810 WP_000464637.1 prepilin peptidase PppA Machinery gene
  LMF34_RS13755 gspS2 2878702..2879112 (+) 411 WP_001324279.1 type II secretion system pilot lipoprotein GspS-beta -
  LMF34_RS13760 gspC 2879130..2880089 (+) 960 WP_115914941.1 type II secretion system protein GspC -
  LMF34_RS13765 gspD 2880119..2882179 (+) 2061 WP_000498848.1 type II secretion system secretin GspD -

Sequence

Protein


Download         Length: 269 a.a.        Molecular weight: 29465.05 Da        Isoelectric Point: 8.3801

>NTDB_id=544042 LMF34_RS13750 WP_000464637.1 2877827..2878636(+) (pilD) [Escherichia coli strain EFF60]
MFFDVFQQYPAAIPVLATVGGLIIGSFLNVVIWRYPIMLRQQMAEFHGEMPSAQSKISLALPRSHCPHCQQTIRIRDNIP
LLSWLMLKGRCRDCQAKISKRYPLVELLTALAFLLASLVWSESGWGLAVMILSAWLIAASIIDLDNQWLPDVFTQGVLWT
GLIAAWAQQSPLTLQDAVTGVLVGFITFYSLRWIAGIVLRKEALGMGDVLLFAALGSWVGPLSLPNVALIASCCGLIYAV
ITKRGSTTLPFGPCLSLGGIATLYLQALF

Nucleotide


Download         Length: 810 bp        

>NTDB_id=544042 LMF34_RS13750 WP_000464637.1 2877827..2878636(+) (pilD) [Escherichia coli strain EFF60]
ATGTTTTTTGATGTTTTTCAGCAATACCCCGCGGCGATACCCGTCCTGGCTACCGTCGGAGGATTGATTATCGGCAGTTT
TTTGAATGTGGTGATTTGGCGTTACCCCATCATGCTGCGCCAACAAATGGCGGAGTTTCACGGTGAAATGCCGAGTGCGC
AGTCAAAAATAAGCCTTGCGCTACCGCGTTCGCACTGCCCACATTGTCAGCAGACCATCCGGATACGTGACAATATTCCG
CTGCTCTCCTGGCTGATGCTCAAAGGGCGCTGCCGTGATTGTCAGGCGAAAATCAGCAAGCGTTATCCGCTGGTGGAGTT
ATTGACAGCACTCGCTTTTTTGCTGGCGAGTCTGGTGTGGTCAGAAAGTGGATGGGGACTGGCGGTGATGATATTATCCG
CCTGGCTGATTGCCGCGAGCATCATCGACCTCGATAACCAATGGCTGCCCGATGTTTTTACTCAGGGCGTATTGTGGACC
GGGCTGATTGCGGCATGGGCGCAACAGAGTCCGTTAACGCTACAAGACGCAGTTACCGGCGTCCTGGTGGGGTTTATCAC
TTTTTACTCCCTGCGCTGGATAGCCGGAATAGTTCTGCGTAAAGAAGCATTAGGCATGGGCGATGTATTATTGTTCGCCG
CTTTAGGTAGTTGGGTGGGGCCGTTATCACTGCCCAATGTTGCTTTAATCGCCTCATGCTGCGGCCTGATATATGCCGTT
ATTACAAAAAGAGGCTCAACCACACTGCCTTTTGGACCGTGTTTAAGTCTGGGCGGTATAGCAACACTTTATCTACAGGC
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

45.318

99.257

0.45
  pilD Vibrio campbellii strain DS40M4

42.435

100

0.428
  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