Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   FYA20_RS08335 Genome accession   NZ_CP043181
Coordinates   1729993..1730802 (-) Length   269 a.a.
NCBI ID   WP_000895857.1    Uniprot ID   -
Organism   Escherichia coli O2:H6 strain PG20180057     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 1724993..1735802
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  FYA20_RS08320 (FYA20_08320) gspD 1726450..1728510 (-) 2061 WP_000498844.1 type II secretion system secretin GspD -
  FYA20_RS08325 (FYA20_08325) gspC 1728540..1729499 (-) 960 WP_024186641.1 type II secretion system protein GspC -
  FYA20_RS08330 (FYA20_08330) gspS2 1729517..1729927 (-) 411 WP_001298257.1 type II secretion system pilot lipoprotein GspS-beta -
  FYA20_RS08335 (FYA20_08335) pilD 1729993..1730802 (-) 810 WP_000895857.1 prepilin peptidase PppA Machinery gene
  FYA20_RS08340 (FYA20_08340) sslE 1730997..1735553 (-) 4557 WP_001034565.1 lipoprotein metalloprotease SslE -

Sequence

Protein


Download         Length: 269 a.a.        Molecular weight: 29400.96 Da        Isoelectric Point: 8.3801

>NTDB_id=334409 FYA20_RS08335 WP_000895857.1 1729993..1730802(-) (pilD) [Escherichia coli O2:H6 strain PG20180057]
MLFDVFQQYPAAMPILATAGGLIIGSFLNVVIWRYPIMLRQQMAEFHGETPSTQSKISLALPRSHCPHCQQTIRVRDNIP
LLSWLMLKGRCRDCQAKISKRYPLVELLTALAFLLASLVWPESGWGLAVMILSAWLIAASIIDLDNQWLPDVFTQGVLWT
GLIAAWAQQSPLTLQDAVTGVLVGFITFYSLRWIAGIVLRKEALGMGDVLLFAALGGWVGPLSLPNVALIASCCGLIYAV
ITKRGSTTLPFGPCLSLGGIATLYLQALF

Nucleotide


Download         Length: 810 bp        

>NTDB_id=334409 FYA20_RS08335 WP_000895857.1 1729993..1730802(-) (pilD) [Escherichia coli O2:H6 strain PG20180057]
ATGCTTTTTGATGTTTTTCAGCAATACCCCGCGGCGATGCCCATACTGGCAACCGCAGGAGGATTGATCATCGGCAGTTT
TTTGAATGTGGTGATTTGGCGTTACCCCATCATGCTGCGCCAACAAATGGCGGAGTTTCATGGTGAAACGCCGAGTACGC
AGTCAAAAATAAGCCTTGCGCTACCGCGTTCGCACTGTCCGCATTGCCAGCAGACTATCCGCGTTCGTGACAATATTCCG
CTGCTCTCATGGTTGATGCTCAAAGGGCGCTGCCGCGACTGTCAGGCGAAAATCAGCAAGCGTTATCCGCTGGTTGAGTT
ATTGACAGCACTTGCTTTTTTGCTGGCGAGTCTGGTGTGGCCAGAAAGTGGATGGGGACTGGCGGTGATGATATTATCCG
CGTGGCTGATTGCCGCGAGCATCATCGACCTCGACAACCAATGGCTGCCCGATGTTTTTACTCAGGGCGTATTGTGGACA
GGACTGATTGCGGCATGGGCGCAGCAGAGTCCGTTAACGCTACAAGACGCAGTCACCGGCGTCCTGGTGGGGTTTATCAC
TTTTTACTCCCTGCGCTGGATAGCCGGAATAGTTCTGCGTAAAGAAGCATTAGGCATGGGCGATGTATTACTTTTCGCCG
CTTTAGGTGGCTGGGTGGGGCCGTTGTCGCTACCCAATGTTGCTTTAATCGCATCATGCTGCGGTCTGATATATGCCGTT
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 Acinetobacter nosocomialis M2

38.491

98.513

0.379
  pilD Acinetobacter baumannii D1279779

38.113

98.513

0.375
  pilD Neisseria gonorrhoeae MS11

38.911

95.539

0.372