Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   VYI54_RS11375 Genome accession   NZ_CP142939
Coordinates   2303545..2304354 (-) Length   269 a.a.
NCBI ID   WP_001333829.1    Uniprot ID   Q46836
Organism   Escherichia coli strain B20127     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 2298545..2309354
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  VYI54_RS11360 (VYI54_11360) gspD 2300002..2302062 (-) 2061 WP_000498829.1 type II secretion system secretin GspD -
  VYI54_RS11365 (VYI54_11365) gspC 2302092..2303051 (-) 960 WP_000135076.1 type II secretion system protein GspC -
  VYI54_RS11370 (VYI54_11370) gspS2 2303069..2303479 (-) 411 WP_001324279.1 type II secretion system pilot lipoprotein GspS-beta -
  VYI54_RS11375 (VYI54_11375) pilD 2303545..2304354 (-) 810 WP_001333829.1 prepilin peptidase PppA Machinery gene
  VYI54_RS11380 (VYI54_11380) sslE 2304552..2309114 (-) 4563 WP_001034462.1 lipoprotein metalloprotease SslE -

Sequence

Protein


Download         Length: 269 a.a.        Molecular weight: 29466.06 Da        Isoelectric Point: 8.3829

>NTDB_id=842810 VYI54_RS11375 WP_001333829.1 2303545..2304354(-) (pilD) [Escherichia coli strain B20127]
MLFDVFQQYPTAMPVLATVGGLIIGSFLNVVIWRYPIMLRQQMAEFHGEMSSAQSKISLALPRSHCPHCQQTIRIRDNIP
LFSWLMLKGRCRDCQAKISKRYPLVELLTALAFLLASLVWPESGWGLAVMILSAWLIAASVIDLDHQWLPDVFTQGVLWT
GLIAAWAQQSPLTLQDAVTGVLVGFITFYSLRWIAGIVLRKEALGMGDVLLFAALGGWVGALSLPNVALIASCCGLIYAV
ITKRGSTTLPFGPCLSLGGIATLYLQALF

Nucleotide


Download         Length: 810 bp        

>NTDB_id=842810 VYI54_RS11375 WP_001333829.1 2303545..2304354(-) (pilD) [Escherichia coli strain B20127]
ATGCTTTTTGATGTTTTTCAGCAATACCCCACGGCGATGCCCGTCCTGGCAACCGTCGGAGGATTGATCATCGGCAGTTT
TTTGAATGTGGTGATTTGGCGTTACCCAATCATGCTGCGCCAACAAATGGCGGAGTTTCACGGTGAAATGTCGAGTGCGC
AGTCAAAAATAAGCCTTGCGCTACCGCGTTCGCACTGCCCACATTGTCAGCAGACCATCCGGATACGTGACAATATTCCG
CTGTTCTCCTGGCTGATGCTCAAAGGGCGCTGCCGCGACTGTCAGGCGAAAATCAGCAAGCGTTATCCGCTGGTGGAGTT
ATTGACAGCACTTGCTTTTTTGCTGGCGAGTCTGGTCTGGCCAGAAAGTGGATGGGGGCTGGCGGTGATGATATTATCCG
CCTGGCTGATTGCCGCGAGCGTCATCGACCTCGATCACCAATGGCTGCCCGATGTTTTTACTCAGGGCGTATTGTGGACA
GGACTGATTGCGGCATGGGCGCAGCAGAGTCCGCTCACGCTACAAGATGCAGTCACCGGCGTCCTGGTGGGATTTATCAC
TTTTTACTCTCTGCGTTGGATAGCCGGAATAGTTCTGCGTAAAGAAGCATTAGGCATGGGCGATGTATTACTTTTCGCCG
CGTTAGGTGGCTGGGTGGGGGCATTGTCGCTGCCCAATGTTGCTTTAATCGCCTCATGCTGCGGCCTGATATATGCCGTT
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
  AlphaFold DB Q46836

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

44.944

99.257

0.446
  pilD Vibrio campbellii strain DS40M4

42.435

100

0.428
  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