Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   HHJ54_RS04675 Genome accession   NZ_CP053245
Coordinates   1015222..1016031 (-) Length   269 a.a.
NCBI ID   WP_000895875.1    Uniprot ID   -
Organism   Escherichia coli strain SCU-485     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 1010222..1021031
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  HHJ54_RS04660 (HHJ54_04660) gspD 1011679..1013739 (-) 2061 WP_000498844.1 type II secretion system secretin GspD -
  HHJ54_RS04665 (HHJ54_04665) gspC 1013769..1014728 (-) 960 WP_024175985.1 type II secretion system protein GspC -
  HHJ54_RS04670 (HHJ54_04670) gspS2 1014746..1015156 (-) 411 WP_001298257.1 type II secretion system pilot lipoprotein GspS-beta -
  HHJ54_RS04675 (HHJ54_04675) pilD 1015222..1016031 (-) 810 WP_000895875.1 prepilin peptidase PppA Machinery gene
  HHJ54_RS04680 (HHJ54_04680) sslE 1016195..1020766 (-) 4572 WP_170969200.1 lipoprotein metalloprotease SslE -

Sequence

Protein


Download         Length: 269 a.a.        Molecular weight: 29447.05 Da        Isoelectric Point: 8.3801

>NTDB_id=390900 HHJ54_RS04675 WP_000895875.1 1015222..1016031(-) (pilD) [Escherichia coli strain SCU-485]
MLFDVFQQYPAAMPILATVGGLIIGSFLNVVIWRYPIMLRQQMAEFHGETPSTQSKISLALPRSHCPHCQQTIRVRDNIP
LLSWLMLKGRCRDCQAKISKRYPLVELLTALAFLLASLVWPESGWGLAVMILSAWLIAASIIDLDNQWLPDVFTQGVLWT
GLIAAWAQQSPLTLQDAVTGVLVGFITFYSLRWIAGIVLRKEALGMGDVLLFAALGGWVGPLSLPNVALIASCCGLIYAV
ITKRGSTTLPFGPCLSLGGMATLYLQALF

Nucleotide


Download         Length: 810 bp        

>NTDB_id=390900 HHJ54_RS04675 WP_000895875.1 1015222..1016031(-) (pilD) [Escherichia coli strain SCU-485]
ATGCTTTTTGATGTTTTTCAGCAATACCCCGCGGCGATGCCCATACTGGCAACCGTCGGAGGATTGATCATCGGCAGTTT
TTTGAATGTGGTGATTTGGCGTTACCCCATCATGCTGCGCCAACAAATGGCGGAGTTTCATGGTGAAACGCCGAGTACGC
AGTCAAAAATAAGCCTTGCGCTACCGCGTTCGCACTGTCCGCATTGTCAGCAGACCATCCGCGTTCGTGACAATATTCCG
CTGCTCTCCTGGCTGATGCTCAAAGGGCGCTGCCGTGACTGTCAGGCGAAAATCAGCAAGCGTTATCCGCTGGTGGAATT
ATTGACAGCACTCGCTTTTTTGCTGGCGAGTCTGGTGTGGCCAGAAAGTGGATGGGGACTGGCGGTGATGATATTATCCG
CGTGGCTGATTGCCGCGAGCATCATCGACCTCGACAACCAATGGCTGCCCGATGTTTTTACTCAGGGCGTATTGTGGACC
GGGCTGATTGCGGCATGGGCGCAACAGAGTCCGTTAACGCTACAAGACGCAGTCACCGGCGTCCTGGTGGGGTTTATCAC
TTTTTACTCCCTGCGCTGGATAGCCGGAATAGTTCTGCGTAAAGAAGCATTAGGCATGGGCGATGTATTACTTTTCGCTG
CGTTAGGTGGCTGGGTGGGGCCGTTGTCGCTACCCAATGTGGCTTTAATCGCCTCATGCTGCGGCCTGATATATGCCGTT
ATTACAAAAAGAGGATCAACCACACTGCCTTTTGGACCGTGTTTAAGTCTGGGCGGTATGGCAACACTTTATCTACAGGC
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 Neisseria gonorrhoeae MS11

39.3

95.539

0.375
  pilD Acinetobacter baumannii D1279779

38.113

98.513

0.375