Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   VB103_RS04055 Genome accession   NZ_CP141840
Coordinates   828930..829688 (+) Length   252 a.a.
NCBI ID   WP_073461578.1    Uniprot ID   -
Organism   Escherichia coli strain LA3     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 823930..834688
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  VB103_RS04050 (VB103_04050) sslE 824214..828782 (+) 4569 Protein_795 lipoprotein metalloprotease SslE -
  VB103_RS04055 (VB103_04055) pilD 828930..829688 (+) 759 WP_073461578.1 prepilin peptidase PppA Machinery gene
  VB103_RS04060 (VB103_04060) - 829739..830436 (+) 698 WP_094096600.1 IS1-like element IS1A family transposase -
  VB103_RS04070 (VB103_04070) yqgA 830702..831409 (-) 708 WP_000234514.1 DUF554 domain-containing protein -
  VB103_RS04075 (VB103_04075) yqgH 831562..831645 (+) 84 WP_211180506.1 protein YqgH -
  VB103_RS04080 (VB103_04080) speC 831807..833942 (+) 2136 WP_001326492.1 ornithine decarboxylase -

Sequence

Protein


Download         Length: 252 a.a.        Molecular weight: 27689.98 Da        Isoelectric Point: 8.4944

>NTDB_id=838432 VB103_RS04055 WP_073461578.1 828930..829688(+) (pilD) [Escherichia coli strain LA3]
MLFDVFQQYPAAMPILATVGGLIIGSFLNVVIWRYPIMLRQQMAEFHGEMPSAQSKISLALPRSHCPHCQQTIRIRDNIP
LLSWLMLKGRCRDCQAKISKRYPLVELLTALAFLLASLVWPESGWALAVMILSAWLIAASVIDLDHQWLPDVFTQGVLWT
GLIAAWAQQSPLTLQDAVTGVLVGFIAFYSLRWIAGVVLRKEALGMGDVLLFAALGSWVGPLSLPNVALIASCCGLIYAV
ITKRGSTTLPFG

Nucleotide


Download         Length: 759 bp        

>NTDB_id=838432 VB103_RS04055 WP_073461578.1 828930..829688(+) (pilD) [Escherichia coli strain LA3]
ATGCTTTTTGATGTTTTTCAGCAATACCCCGCGGCGATGCCCATACTGGCAACCGTCGGAGGATTGATCATCGGCAGTTT
TTTGAATGTGGTGATTTGGCGTTACCCCATCATGCTGCGCCAACAAATGGCGGAGTTTCATGGTGAAATGCCGAGTGCGC
AGTCAAAAATAAGCCTTGCACTACCGCGTTCCCACTGCCCACATTGTCAGCAGACCATCCGGATACGTGACAATATTCCG
CTGCTCTCCTGGCTGATGCTCAAAGGGCGCTGCCGTGATTGTCAGGCGAAAATCAGCAAGCGTTATCCGTTGGTGGAGTT
ATTGACGGCACTCGCTTTTTTGCTGGCGAGTCTGGTCTGGCCGGAAAGTGGATGGGCGCTGGCGGTGATGATATTATCCG
CCTGGCTGATTGCCGCGAGCGTCATTGACCTCGATCACCAATGGCTGCCCGATGTTTTTACTCAGGGCGTATTGTGGACG
GGACTGATTGCGGCATGGGCGCAGCAGAGCCCGCTCACGCTACAAGATGCAGTTACCGGCGTCCTGGTGGGGTTTATCGC
TTTTTACTCCCTGCGCTGGATAGCCGGAGTAGTTCTGCGTAAAGAAGCATTAGGCATGGGCGATGTATTATTGTTCGCTG
CGTTAGGTAGTTGGGTGGGGCCGTTGTCGCTACCCAATGTTGCTTTAATCGCATCATGCTGCGGCCTGATATATGCCGTT
ATTACAAAAAGAGGATCAACCACACTGCCTTTTGGGTGA

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

45.769

100

0.472
  pilD Vibrio campbellii strain DS40M4

42.308

100

0.437
  pilD Acinetobacter nosocomialis M2

40

100

0.405
  pilD Acinetobacter baumannii D1279779

39.608

100

0.401
  pilD Neisseria gonorrhoeae MS11

40

95.238

0.381