Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   ECSE_RS16920 Genome accession   NC_011415
Coordinates   3372737..3373546 (-) Length   269 a.a.
NCBI ID   WP_001331203.1    Uniprot ID   -
Organism   Escherichia coli SE11     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 3367737..3378546
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  ECSE_RS16905 (ECSE_3245) gspD 3369194..3371254 (-) 2061 WP_000498836.1 type II secretion system secretin GspD -
  ECSE_RS16910 (ECSE_3246) gspC 3371284..3372243 (-) 960 WP_000135062.1 type II secretion system protein GspC -
  ECSE_RS16915 (ECSE_3247) gspS2 3372261..3372671 (-) 411 WP_001324279.1 type II secretion system pilot lipoprotein GspS-beta -
  ECSE_RS16920 (ECSE_3248) pilD 3372737..3373546 (-) 810 WP_001331203.1 prepilin peptidase PppA Machinery gene
  ECSE_RS16925 (ECSE_3249) sslE 3373686..3378254 (-) 4569 WP_001034518.1 lipoprotein metalloprotease SslE -

Sequence

Protein


Download         Length: 269 a.a.        Molecular weight: 29496.17 Da        Isoelectric Point: 8.3829

>NTDB_id=28747 ECSE_RS16920 WP_001331203.1 3372737..3373546(-) (pilD) [Escherichia coli SE11]
MLFDVFQQYPAAMPILATVGGLIIGSFLNVVIWRYPIMLRQQMAEFHGEMPSAQSKISLALPRSHCPHCQQTIRIRDNIP
LLSWLMLKGRCRDCQAKISKRYPLVELLTALAFLLASLVWPESGWALAVMILSAWLIAASVIDLDHQWLPDVFTQGVLWT
GLIAAWAQQSPLTLQDAVTGVLVGFITFYSLRWIAGIVLRKEALGMGDVLLFAALGSWVGPLSLPNVALIASCCGLIYAV
ITKRGSTTLPFGPCLSLGGIATIYLQALF

Nucleotide


Download         Length: 810 bp        

>NTDB_id=28747 ECSE_RS16920 WP_001331203.1 3372737..3373546(-) (pilD) [Escherichia coli SE11]
ATGCTTTTTGATGTTTTTCAGCAATACCCCGCGGCGATGCCCATACTGGCAACCGTCGGAGGATTGATCATCGGCAGTTT
TTTGAATGTGGTGATTTGGCGTTACCCCATCATGCTGCGCCAACAAATGGCGGAGTTTCATGGTGAAATGCCGAGTGCGC
AGTCAAAAATAAGCCTTGCGCTACCGCGTTCCCACTGCCCACATTGTCAGCAGACCATCCGGATACGTGACAATATTCCG
CTGCTCTCCTGGCTGATGCTCAAAGGGCGCTGCCGTGATTGTCAGGCGAAAATCAGCAAGCGTTATCCGCTGGTGGAGTT
ATTGACGGCACTCGCTTTTTTGCTGGCGAGTCTGGTCTGGCCGGAAAGTGGATGGGCGCTGGCGGTGATGATATTATCCG
CCTGGCTGATTGCCGCGAGCGTCATTGACCTCGATCACCAATGGCTGCCCGATGTTTTTACTCAGGGCGTATTGTGGACG
GGACTGATTGCGGCATGGGCGCAGCAGAGCCCGCTCACGCTACAAGATGCAGTCACCGGCGTCCTGGTGGGGTTTATCAC
TTTTTACTCTCTGCGCTGGATAGCCGGAATAGTTCTGCGTAAAGAAGCATTAGGCATGGGCGATGTATTATTGTTCGCTG
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

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

38.491

98.513

0.379
  pilD Neisseria gonorrhoeae MS11

39.3

95.539

0.375
  pilD Acinetobacter baumannii D1279779

38.113

98.513

0.375

Multiple sequence alignment