Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   RG38_RS13055 Genome accession   NZ_CP010145
Coordinates   2486480..2487289 (-) Length   269 a.a.
NCBI ID   WP_001317326.1    Uniprot ID   -
Organism   Escherichia coli strain D5     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 2481480..2492289
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  RG38_RS13040 (RG38_12335) gspD 2482937..2484997 (-) 2061 WP_000498824.1 type II secretion system secretin GspD -
  RG38_RS13045 (RG38_12340) gspC 2485027..2485986 (-) 960 WP_001317325.1 type II secretion system protein GspC -
  RG38_RS13050 (RG38_12345) gspS2 2486004..2486414 (-) 411 WP_001349452.1 type II secretion system pilot lipoprotein GspS-beta -
  RG38_RS13055 (RG38_12350) pilD 2486480..2487289 (-) 810 WP_001317326.1 prepilin peptidase PppA Machinery gene
  RG38_RS13060 (RG38_12355) sslE 2487429..2491997 (-) 4569 WP_001034504.1 lipoprotein metalloprotease SslE -

Sequence

Protein


Download         Length: 269 a.a.        Molecular weight: 29480.21 Da        Isoelectric Point: 8.3821

>NTDB_id=116173 RG38_RS13055 WP_001317326.1 2486480..2487289(-) (pilD) [Escherichia coli strain D5]
MLFDVFQQYPAAMPILATVGGLIIGSFLNVVIWRYPIMLRQQMAEFHGEMPSAQSKISLALPRSHCPHCQQTIRIRDNIP
LLSWLMLKGRCRDCQAKISKRYPLVELLTALAFLLASLVWPESGWALAVMILSAWLIAASVIDLDHQWLPDVFTQGVLWT
GLIAAWAQQSPLTLQDAVTGVLVGFITFYSLRWIAGIVLRKEALGMGDVLLFAALGSWVGPLSLPNVALIASCCGLIYAV
IIKKGSTTLPFGPCLSLGGIATLYLQALF

Nucleotide


Download         Length: 810 bp        

>NTDB_id=116173 RG38_RS13055 WP_001317326.1 2486480..2487289(-) (pilD) [Escherichia coli strain D5]
ATGCTTTTTGATGTTTTTCAGCAATACCCCGCGGCGATGCCCATACTGGCTACCGTCGGAGGATTGATTATCGGCAGTTT
TTTGAATGTGGTGATTTGGCGTTACCCCATCATGCTGCGCCAACAAATGGCGGAGTTTCATGGTGAAATGCCGAGTGCGC
AGTCAAAAATAAGCCTTGCGCTACCGCGTTCGCACTGCCCACATTGTCAGCAGACCATCCGGATACGTGACAATATTCCG
CTGCTCTCCTGGCTGATGCTCAAAGGGCGCTGCCGCGACTGTCAGGCGAAAATCAGCAAGCGTTATCCGCTGGTGGAGTT
ATTGACAGCACTCGCTTTTTTGCTGGCGAGTCTGGTCTGGCCGGAAAGTGGATGGGCGCTGGCGGTGATGATATTATCCG
CCTGGCTGATTGCCGCGAGCGTCATTGACCTCGATCACCAATGGCTGCCCGATGTTTTTACTCAGGGCGTATTGTGGACG
GGACTAATTGCGGCATGGGCGCAGCAGAGCCCGCTCACGCTACAAGATGCAGTCACCGGCGTCCTGGTGGGGTTTATCAC
TTTTTACTCTCTGCGCTGGATAGCCGGAATAGTTCTGCGTAAAGAAGCATTAGGCATGGGCGATGTATTATTGTTCGCTG
CGTTAGGTAGTTGGGTGGGGCCGTTGTCACTGCCCAATGTTGCTTTAATCGCCTCATGCTGCGGCCTGATATATGCCGTT
ATTATAAAAAAAGGATCAACCACACTGCCTTTTGGACCGTGTTTAAGTCTGGGCGGTATAGCAACACTTTATCTACAGGC
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

46.067

99.257

0.457
  pilD Vibrio campbellii strain DS40M4

42.066

100

0.424
  pilD Neisseria gonorrhoeae MS11

39.922

95.911

0.383
  pilD Acinetobacter nosocomialis M2

38.491

98.513

0.379
  pilD Acinetobacter baumannii D1279779

38.113

98.513

0.375