Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   OGM38_RS11715 Genome accession   NZ_CP107164
Coordinates   2358588..2359397 (-) Length   269 a.a.
NCBI ID   WP_001296399.1    Uniprot ID   -
Organism   Escherichia coli strain R9     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 2353588..2364397
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  OGM38_RS11700 (OGM38_11675) gspD 2355045..2357105 (-) 2061 WP_000498848.1 type II secretion system secretin GspD -
  OGM38_RS11705 (OGM38_11680) gspC 2357135..2358094 (-) 960 WP_001296397.1 type II secretion system protein GspC -
  OGM38_RS11710 (OGM38_11685) gspS2 2358112..2358522 (-) 411 WP_001309757.1 type II secretion system pilot lipoprotein GspS-beta -
  OGM38_RS11715 (OGM38_11690) pilD 2358588..2359397 (-) 810 WP_001296399.1 prepilin peptidase PppA Machinery gene
  OGM38_RS11720 (OGM38_11695) sslE 2359527..2364092 (-) 4566 WP_001296400.1 lipoprotein metalloprotease SslE -

Sequence

Protein


Download         Length: 269 a.a.        Molecular weight: 29439.03 Da        Isoelectric Point: 8.3801

>NTDB_id=641835 OGM38_RS11715 WP_001296399.1 2358588..2359397(-) (pilD) [Escherichia coli strain R9]
MFFDVFQQYPAAMPVLATVGGLIIGSFLNVVIWRYPIMLRQQMAEFHGEMSSAQSKISLALPRSHCPHCQQTIRVRDNIP
LLSWLMLKGRCRDCQAKISKRYPLVELLTALAFLLASLVWPESGWALAVMILSAWLIAASVIDLDNQWLPDVFTQGVLWT
GLIAAWAQQSPLTLQDAVTGVLVGFITFYSLRWIAGIVLRKEALGMGDVLLFAALGGWVGPLSLPNVALIASCCGLIYAV
ITKRGSTTLPFGPCLSLGGIATLYLQALF

Nucleotide


Download         Length: 810 bp        

>NTDB_id=641835 OGM38_RS11715 WP_001296399.1 2358588..2359397(-) (pilD) [Escherichia coli strain R9]
ATGTTTTTTGATGTTTTTCAGCAATACCCCGCGGCGATGCCCGTCCTGGCTACCGTCGGAGGATTGATCATCGGCAGTTT
TTTGAATGTGGTGATTTGGCGTTACCCCATCATGCTGCGCCAACAAATGGCGGAGTTTCACGGTGAAATGTCGAGTGCGC
AGTCAAAAATAAGCCTTGCGCTGCCGCGTTCGCACTGTCCGCATTGCCAGCAGACTATCCGCGTTCGTGACAATATTCCG
CTGCTCTCCTGGTTGATGCTCAAAGGGCGCTGCCGTGATTGTCAGGCGAAAATCAGCAAGCGTTATCCGCTGGTGGAGTT
ATTGACGGCACTCGCTTTTTTGCTGGCGAGCCTGGTGTGGCCGGAAAGTGGATGGGCGCTGGCGGTGATGATATTATCCG
CCTGGCTGATTGCCGCGAGCGTCATTGACCTCGATAACCAATGGCTGCCCGATGTTTTTACTCAGGGCGTATTGTGGACG
GGACTAATTGCGGCATGGGCGCAGCAGAGCCCGCTCACGCTACAAGACGCAGTTACCGGCGTACTGGTGGGGTTTATCAC
TTTTTACTCTCTGCGCTGGATAGCCGGAATAGTTCTGCGTAAAGAAGCATTAGGCATGGGCGATGTATTACTTTTCGCTG
CGTTAGGTGGCTGGGTGGGGCCGTTGTCGCTACCCAATGTTGCTTTAATCGCATCATGCTGCGGCCTGATATATGCCGTT
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

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

39.3

95.539

0.375
  pilD Acinetobacter nosocomialis M2

38.113

98.513

0.375
  pilD Acinetobacter baumannii D1279779

37.736

98.513

0.372