Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   HO398_RS14475 Genome accession   NZ_CP053600
Coordinates   2975559..2976368 (-) Length   269 a.a.
NCBI ID   WP_000895873.1    Uniprot ID   -
Organism   Escherichia coli strain Nico21(DE3)     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 2970559..2981368
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  HO398_RS14460 (HO398_14465) gspD 2972016..2974076 (-) 2061 WP_000498829.1 type II secretion system secretin GspD -
  HO398_RS14465 (HO398_14470) gspC 2974106..2975065 (-) 960 WP_014639304.1 type II secretion system protein GspC -
  HO398_RS14470 (HO398_14475) gspS2 2975083..2975493 (-) 411 WP_001305972.1 type II secretion system pilot lipoprotein GspS-beta -
  HO398_RS14475 (HO398_14480) pilD 2975559..2976368 (-) 810 WP_000895873.1 prepilin peptidase PppA Machinery gene
  HO398_RS14480 (HO398_14485) sslE 2976532..2981085 (-) 4554 WP_001034486.1 lipoprotein metalloprotease SslE -

Sequence

Protein


Download         Length: 269 a.a.        Molecular weight: 29402.98 Da        Isoelectric Point: 8.3801

>NTDB_id=392398 HO398_RS14475 WP_000895873.1 2975559..2976368(-) (pilD) [Escherichia coli strain Nico21(DE3)]
MLFDVFQQYPAAMPILATVGGLIIGSFLNVVIWRYPIMLRQQMAEFHGETPSTQSKISLALPRSHCPHCQQTIRVRDNIP
LLSWLMLKGRCRDCQAKISKRYPLVELLTALAFLLASLVWPESGWGLAVMILSAWLIAASIIDLDNQWLPDVFTQGVLWT
GLIAAWAQQSPLTLQDAVTGVLVGFITFYSLRWIAGIVLRKEALGMGDVLLFAALGGWVGALSLPNVALIASCCGLIYAV
ITKRGSTTLPFGPCLSLGGIATLYLQALF

Nucleotide


Download         Length: 810 bp        

>NTDB_id=392398 HO398_RS14475 WP_000895873.1 2975559..2976368(-) (pilD) [Escherichia coli strain Nico21(DE3)]
ATGCTTTTTGATGTTTTTCAGCAATACCCCGCGGCGATGCCCATACTGGCAACCGTCGGAGGATTGATCATCGGCAGTTT
TTTGAATGTGGTGATTTGGCGTTACCCCATCATGCTGCGCCAACAAATGGCGGAGTTTCATGGTGAAACGCCGAGTACGC
AGTCAAAAATAAGCCTTGCGCTACCGCGTTCGCACTGTCCGCATTGCCAGCAGACTATCCGCGTTCGTGACAATATTCCG
CTGCTCTCATGGTTGATGCTCAAAGGGCGCTGCCGCGACTGTCAGGCGAAAATCAGCAAGCGTTATCCGCTGGTTGAGTT
ATTGACAGCACTTGCTTTTTTGCTGGCGAGTCTGGTGTGGCCAGAAAGTGGATGGGGACTGGCGGTGATGATATTATCCG
CGTGGCTGATTGCCGCGAGCATCATCGACCTCGACAACCAATGGCTGCCCGATGTTTTTACTCAGGGCGTATTGTGGACC
GGGCTGATTGCGGCATGGGCGCAACAGAGTCCGTTAACGCTACAAGACGCAGTCACCGGCGTCCTGGTGGGGTTTATCAC
TTTTTACTCCCTGCGCTGGATAGCCGGAATAGTTCTGCGTAAAGAAGCATTAGGCATGGGCGATGTATTACTCTTCGCCG
CTTTAGGTGGCTGGGTGGGGGCGTTATCACTGCCCAACGTTGCTTTAATCGCCTCATGCTGCGGCCTGATATATGCCGTT
ATTACAAAAAGAGGATCAACCACACTGCCTTTTGGACCGTGTTTAAGTCTGGGCGGTATAGCAACACTTTATCTACAGGC
ATTGTTTTAA

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

45.693

99.257

0.454
  pilD Vibrio campbellii strain DS40M4

41.026

100

0.416
  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