Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   LCF29_RS04170 Genome accession   NZ_CP084096
Coordinates   843092..843901 (+) Length   269 a.a.
NCBI ID   WP_000895861.1    Uniprot ID   -
Organism   Escherichia coli O78 strain 3     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 838092..848901
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  LCF29_RS04170 (LCF29_04170) pilD 843092..843901 (+) 810 WP_000895861.1 prepilin peptidase PppA Machinery gene
  LCF29_RS04175 (LCF29_04175) gspS2 843967..844377 (+) 411 WP_023154867.1 type II secretion system pilot lipoprotein GspS-beta -
  LCF29_RS04180 (LCF29_04180) gspC 844395..845354 (+) 960 WP_000135081.1 type II secretion system protein GspC -
  LCF29_RS04185 (LCF29_04185) gspD 845384..847444 (+) 2061 WP_000498829.1 type II secretion system secretin GspD -

Sequence

Protein


Download         Length: 269 a.a.        Molecular weight: 29510.20 Da        Isoelectric Point: 8.3829

>NTDB_id=534169 LCF29_RS04170 WP_000895861.1 843092..843901(+) (pilD) [Escherichia coli O78 strain 3]
MLFDVFQQYPAAMPILATVGGLIIGSFLNVVIWRYPIMLRQQMAEFHGEMPSAQSKISLALPRSHCPHCQQTIRIRDNIP
LLSWLMLKGRCRDCQAKISKRYPLVELLTALAFLLASLVWPESGWALAVMILSAWLIAASIIDLDHQWLPDVFTQGVLWT
GLIAAWAQQSPLTLQDAVTGVLVGFITFYSLRWIAGIVLRKEALGMGDVLLFAALGSWVGPLSLPNVALIASCCGLIYAV
ITKRGSTTLPFGPCLSLGGIATLYLQALF

Nucleotide


Download         Length: 810 bp        

>NTDB_id=534169 LCF29_RS04170 WP_000895861.1 843092..843901(+) (pilD) [Escherichia coli O78 strain 3]
ATGCTTTTTGATGTTTTTCAGCAATACCCTGCGGCGATGCCCATCCTGGCAACCGTCGGAGGATTAATCATCGGTAGTTT
TTTGAATGTGGTGATTTGGCGTTACCCCATCATGCTGCGCCAACAAATGGCGGAGTTTCATGGTGAAATGCCGAGTGCGC
AGTCAAAAATAAGCCTTGCGCTACCGCGTTCGCACTGCCCACATTGTCAGCAGACCATCCGGATACGTGACAATATTCCG
CTGCTCTCCTGGCTGATGCTCAAAGGGCGCTGCCGTGATTGTCAGGCGAAAATCAGCAAGCGTTATCCGCTGGTGGAGTT
ATTGACGGCACTCGCTTTTTTGCTGGCGAGCCTGGTGTGGCCGGAAAGTGGATGGGCGCTGGCGGTGATGATATTATCCG
CCTGGCTGATTGCCGCGAGCATCATCGACCTCGATCACCAATGGCTGCCCGATGTTTTTACTCAGGGCGTATTGTGGACG
GGACTAATTGCGGCATGGGCGCAGCAGAGCCCGCTCACGCTACAAGATGCAGTCACCGGCGTCCTGGTGGGGTTTATCAC
TTTTTACTCTCTGCGCTGGATAGCCGGAATAGTTCTGCGTAAAGAAGCATTAGGCATGGGCGATGTATTATTGTTCGCCG
CTTTAGGTAGTTGGGTGGGACCGTTATCACTGCCCAATGTTGCTTTAATCGCCTCATGCTGCGGCCTGATATATGCCGTT
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

45.693

99.257

0.454
  pilD Vibrio campbellii strain DS40M4

42.066

100

0.424
  pilD Acinetobacter nosocomialis M2

38.491

98.513

0.379
  pilD Neisseria gonorrhoeae MS11

39.3

95.539

0.375
  pilD Acinetobacter baumannii D1279779

38.113

98.513

0.375