Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   EXA09_RS09130 Genome accession   NZ_CP035812
Coordinates   1939784..1940593 (+) Length   269 a.a.
NCBI ID   WP_001297673.1    Uniprot ID   Q8VRN2
Organism   Escherichia coli strain B7A     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 1934784..1945593
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  EXA09_RS09125 sslE 1935068..1939636 (+) 4569 WP_001034511.1 lipoprotein metalloprotease SslE -
  EXA09_RS09130 pilD 1939784..1940593 (+) 810 WP_001297673.1 prepilin peptidase PppA Machinery gene
  EXA09_RS09135 gspS2 1940659..1941069 (+) 411 WP_001324279.1 type II secretion system pilot lipoprotein GspS-beta -
  EXA09_RS09140 gspC 1941087..1942046 (+) 960 WP_000135069.1 type II secretion system protein GspC -
  EXA09_RS09145 gspD 1942076..1944136 (+) 2061 WP_000498824.1 type II secretion system secretin GspD -

Sequence

Protein


Download         Length: 269 a.a.        Molecular weight: 29452.12 Da        Isoelectric Point: 8.3829

>NTDB_id=305068 EXA09_RS09130 WP_001297673.1 1939784..1940593(+) (pilD) [Escherichia coli strain B7A]
MLFDVFQQYPAAMPILATVGGLIIGSFLNVVIWRYPIMLRQQMAEFHGEMPSAQSKISLALPRSHCPHCQQTIRIRDNIP
LLSWLMLKGRCRDCQAKISKRYPLVELLTALAFLLASLVWPESGWALAVMILSAWLIAASVIDLDHQWLPDVFTQGVLWT
GLIAAWAQQSPLTLQDAVTGVLVGFIAFYSLRWIAGVVLRKEALGMGDVLLFAALGSWVGPLSLPNVALIASCCGLIYAV
ITKRGSTTLPFGPCLSLGGIATIYLQALF

Nucleotide


Download         Length: 810 bp        

>NTDB_id=305068 EXA09_RS09130 WP_001297673.1 1939784..1940593(+) (pilD) [Escherichia coli strain B7A]
ATGCTTTTTGATGTTTTTCAGCAATACCCCGCGGCGATGCCCATACTGGCAACCGTCGGAGGATTGATCATCGGCAGTTT
TTTGAATGTGGTGATTTGGCGTTACCCCATCATGCTGCGCCAACAAATGGCGGAGTTTCATGGTGAAATGCCGAGTGCGC
AGTCAAAAATAAGCCTTGCGCTACCGCGTTCCCACTGCCCACATTGTCAGCAGACCATCCGGATACGTGACAATATTCCG
CTGCTCTCCTGGCTGATGCTCAAAGGGCGCTGCCGTGATTGTCAGGCGAAAATCAGCAAGCGTTATCCGCTGGTGGAGTT
ATTGACGGCACTCGCTTTTTTGCTGGCGAGTCTGGTCTGGCCGGAAAGTGGATGGGCGCTGGCGGTGATGATATTATCCG
CCTGGCTGATTGCCGCGAGCGTCATTGACCTCGATCACCAATGGCTGCCCGATGTTTTTACTCAGGGCGTATTGTGGACG
GGACTGATTGCGGCATGGGCGCAGCAGAGCCCGCTCACGCTACAAGATGCAGTTACCGGCGTCCTGGTGGGGTTTATCGC
TTTTTACTCCCTGCGCTGGATAGCCGGAGTAGTTCTGCGTAAAGAAGCATTAGGCATGGGCGATGTATTATTGTTCGCTG
CGTTAGGTAGTTGGGTGGGGCCGTTGTCGCTACCCAATGTTGCTTTAATCGCATCATGCTGCGGCCTGATATATGCCGTT
ATTACAAAAAGAGGATCAACCACACTGCCTTTTGGACCGTGTTTAAGTCTGGGCGGTATAGCAACAATTTATCTACAGGC
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 Q8VRN2

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

42.322

99.257

0.42
  pilD Acinetobacter nosocomialis M2

38.868

98.513

0.383
  pilD Acinetobacter baumannii D1279779

38.491

98.513

0.379
  pilD Neisseria gonorrhoeae MS11

39.3

95.539

0.375

Multiple sequence alignment