Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   HPM96_RS18660 Genome accession   NZ_CP053852
Coordinates   3880027..3880836 (-) Length   269 a.a.
NCBI ID   WP_001361237.1    Uniprot ID   -
Organism   Escherichia coli strain CE1628     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 3875027..3885836
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  HPM96_RS18645 (HPM96_18640) gspD 3876484..3878544 (-) 2061 WP_000498848.1 type II secretion system secretin GspD -
  HPM96_RS18650 (HPM96_18645) gspC 3878574..3879533 (-) 960 WP_000135084.1 type II secretion system protein GspC -
  HPM96_RS18655 (HPM96_18650) gspS2 3879551..3879961 (-) 411 WP_001361238.1 type II secretion system pilot lipoprotein GspS-beta -
  HPM96_RS18660 (HPM96_18655) pilD 3880027..3880836 (-) 810 WP_001361237.1 prepilin peptidase PppA Machinery gene
  HPM96_RS18665 (HPM96_18660) sslE 3880966..3885522 (-) 4557 WP_097748323.1 lipoprotein metalloprotease SslE -

Sequence

Protein


Download         Length: 269 a.a.        Molecular weight: 29415.05 Da        Isoelectric Point: 8.3801

>NTDB_id=395897 HPM96_RS18660 WP_001361237.1 3880027..3880836(-) (pilD) [Escherichia coli strain CE1628]
MLFDVFQQYPAAMPILATVGGLIIGSFLNVVIWRYPIMLRQQMAEFHGEMPSAQSKISLALPRSHCPHCQQTIRIRDNIP
LLSWLMLKGRCRDCQAKISKRYPLVELLTALAFLLASLVWPESGWALAVMILSAWLIAASVIDLDNQWLPDVFTQGVLWT
GLIAAWAQQSPLTLQDAVTGVLVGFVSFYSLRWIAGIVLRKEALGMGDVLLFAALGGWVGPLSLPNVALIASCCGLIYAV
ITKRGSTTLPFGPCLSLGGIATLYLQALF

Nucleotide


Download         Length: 810 bp        

>NTDB_id=395897 HPM96_RS18660 WP_001361237.1 3880027..3880836(-) (pilD) [Escherichia coli strain CE1628]
ATGCTTTTTGATGTTTTTCAGCAATACCCCGCGGCGATGCCCATACTGGCAACCGTCGGAGGATTGATCATCGGCAGTTT
TTTGAATGTGGTGATTTGGCGTTACCCCATCATGCTGCGCCAACAAATGGCGGAGTTTCATGGTGAAATGCCGAGTGCGC
AGTCAAAAATAAGCCTTGCGCTACCGCGTTCGCACTGTCCGCATTGCCAGCAGACCATCCGCATTCGTGACAATATTCCG
CTGCTCTCATGGTTGATGCTCAAAGGGCGCTGCCGTGATTGTCAGGCGAAAATCAGCAAGCGTTATCCGCTGGTGGAGTT
ATTGACGGCACTCGCTTTTTTGCTGGCGAGCCTGGTGTGGCCGGAAAGTGGATGGGCGCTGGCGGTGATGATATTATCCG
CCTGGCTGATTGCCGCGAGCGTCATTGACCTCGATAACCAATGGCTGCCCGATGTTTTTACTCAGGGCGTATTGTGGACG
GGACTAATTGCGGCATGGGCGCAGCAGAGCCCGCTCACGCTACAAGACGCAGTTACCGGCGTACTGGTAGGGTTTGTCAG
TTTTTACTCACTGCGCTGGATAGCCGGAATAGTTCTGCGTAAAGAAGCATTAGGCATGGGCGATGTATTACTTTTCGCTG
CGTTAGGTGGCTGGGTGGGGCCGTTGTCGCTACCCAATGTTGCTTTAATCGCATCATGCTGCGGCCTGATATATGCCGTT
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 Acinetobacter nosocomialis M2

38.491

98.513

0.379
  pilD Neisseria gonorrhoeae MS11

39.689

95.539

0.379
  pilD Acinetobacter baumannii D1279779

38.113

98.513

0.375

Multiple sequence alignment