Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   RG73_RS02175 Genome accession   NZ_CP010242
Coordinates   411401..412210 (-) Length   269 a.a.
NCBI ID   WP_000895884.1    Uniprot ID   -
Organism   Escherichia coli strain S56     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 406401..417210
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  RG73_RS02160 (RG73_02040) gspD 407858..409918 (-) 2061 WP_000498824.1 type II secretion system secretin GspD -
  RG73_RS02165 (RG73_02045) gspC 409948..410907 (-) 960 WP_001307390.1 type II secretion system protein GspC -
  RG73_RS02170 (RG73_02050) gspS2 410925..411335 (-) 411 WP_001298744.1 type II secretion system pilot lipoprotein GspS-beta -
  RG73_RS02175 (RG73_02055) pilD 411401..412210 (-) 810 WP_000895884.1 prepilin peptidase PppA Machinery gene
  RG73_RS02185 (RG73_02060) sslE 412537..417102 (-) 4566 WP_001034522.1 lipoprotein metalloprotease SslE -

Sequence

Protein


Download         Length: 269 a.a.        Molecular weight: 29508.22 Da        Isoelectric Point: 8.3829

>NTDB_id=118906 RG73_RS02175 WP_000895884.1 411401..412210(-) (pilD) [Escherichia coli strain S56]
MLFDVFQQYPVAMPILATVGGLIIGSFLNVVIWRYPIMLRQQMAEFHGEMPSAQSKISLALPRSHCPHCQQTIRIRDNIP
LLSWLMLKGRCRDCQAKISKRYPLVELLTALAFLLASLVWPESGWALAVMILSAWLIAASVIDLDHQWLPDVFTQGVLWT
GLIAAWAQQSPLTLQDAVTGVLVGFITFYSLRWIAGIVLRKEALGMGDVLLFAALGGWVGPLSLPNVALIASCCGLIYAI
ITKRGSTTLPFGPCLSLGGIATLYLQALF

Nucleotide


Download         Length: 810 bp        

>NTDB_id=118906 RG73_RS02175 WP_000895884.1 411401..412210(-) (pilD) [Escherichia coli strain S56]
ATGCTTTTTGATGTTTTTCAGCAATACCCCGTGGCGATGCCCATACTGGCTACCGTCGGAGGATTAATCATCGGTAGTTT
TTTGAATGTGGTGATTTGGCGTTACCCCATCATGCTGCGCCAACAAATGGCGGAGTTTCATGGAGAAATGCCGAGTGCGC
AGTCAAAAATAAGCCTTGCGCTACCGCGTTCGCACTGCCCACATTGTCAGCAGACCATCCGGATACGTGACAATATTCCG
CTGCTCTCCTGGCTGATGCTCAAAGGGCGCTGCCGCGACTGTCAGGCGAAAATCAGCAAGCGTTATCCGCTGGTGGAGTT
ATTGACAGCACTCGCTTTTTTGCTGGCGAGTCTGGTCTGGCCGGAAAGTGGATGGGCGCTGGCGGTGATGATATTATCCG
CCTGGCTGATTGCCGCGAGCGTCATTGACCTCGATCACCAATGGCTGCCCGATGTTTTTACTCAGGGCGTATTGTGGACA
GGACTGATTGCGGCATGGGCGCAACAGAGTCCGTTAACGCTACAAGACGCAGTTACCGGCGTCCTGGTGGGGTTTATCAC
TTTTTACTCCCTGCGCTGGATAGCCGGAATAGTTCTGCGTAAAGAAGCATTAGGCATGGGCGATGTATTATTGTTCGCTG
CGTTAGGTGGCTGGGTGGGGCCGTTATCACTGCCCAATGTTGCTTTAATCGCATCATGCTGCGGCCTGATATATGCCATT
ATTACAAAAAGAGGATCAACCACACTGCCTTTTGGACCGTGTTTAAGTCTGGGCGGTATAGCAACACTTTATCTACAGGC
ATTGTTTTAA

Domains

Predicted by InterProScan.

Type IV leader peptidase family (Peptidase_A24)

(130-240)

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

45.693

99.257

0.454
  pilD Vibrio campbellii strain DS40M4

42.066

100

0.424
  pilD Acinetobacter nosocomialis M2

38.868

98.513

0.383
  pilD Acinetobacter baumannii D1279779

38.491

98.513

0.379
  pilD Neisseria gonorrhoeae MS11

39.689

95.539

0.379