Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   PBU98_RS04175 Genome accession   NZ_CP115821
Coordinates   874424..875233 (+) Length   269 a.a.
NCBI ID   WP_001596192.1    Uniprot ID   -
Organism   Escherichia coli strain E1     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 869424..880233
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  PBU98_RS04165 - 869703..871049 (-) 1347 WP_000483767.1 IS4-like element IS4 family transposase -
  PBU98_RS04170 - 871117..874284 (+) 3168 Protein_816 SslE/AcfD family lipoprotein zinc metalloprotease -
  PBU98_RS04175 pilD 874424..875233 (+) 810 WP_001596192.1 prepilin peptidase PppA Machinery gene
  PBU98_RS04180 gspS2 875299..875709 (+) 411 WP_001309757.1 type II secretion system pilot lipoprotein GspS-beta -
  PBU98_RS04185 gspC 875727..876686 (+) 960 WP_247804736.1 type II secretion system protein GspC -
  PBU98_RS04190 gspD 876716..878776 (+) 2061 WP_000498830.1 type II secretion system secretin GspD -

Sequence

Protein


Download         Length: 269 a.a.        Molecular weight: 29483.08 Da        Isoelectric Point: 8.3801

>NTDB_id=706018 PBU98_RS04175 WP_001596192.1 874424..875233(+) (pilD) [Escherichia coli strain E1]
MFFDVFQQYPAAMPVLATVGGLIIGSFLNVVIWRYPIMLRQQMAEFHGEMPSTQSKISLALPRSHCPHCQQTIRVRDNIP
LLSWLMLKGRCRDCQAKISKRYPLVELLTALAFLLASLVWPESGWALAVMILSAWLIAASVIDLDNQWLPDVFTQGVLWT
GLIAAWAQQSPLTLQDAVTGVLVGFITFYSLRWIAGIVLRKEALGMGDVLLFAALGSWVGALSLPNVALIASCCGLIYAV
ITKRGSTTLPFGPCLSLGGIATLYLQALF

Nucleotide


Download         Length: 810 bp        

>NTDB_id=706018 PBU98_RS04175 WP_001596192.1 874424..875233(+) (pilD) [Escherichia coli strain E1]
ATGTTTTTTGATGTTTTTCAGCAATACCCCGCGGCGATGCCCGTCCTGGCTACCGTCGGAGGATTGATTATCGGCAGTTT
TTTGAATGTGGTGATTTGGCGTTACCCCATCATGCTGCGCCAACAAATGGCGGAGTTTCACGGTGAAATGCCGAGTACGC
AGTCAAAAATAAGCCTGGCGCTGCCACGCTCGCACTGTCCGCATTGCCAGCAGACTATCCGCGTTCGTGACAATATTCCG
CTGCTCTCCTGGTTGATGCTCAAAGGGCGCTGCCGTGATTGTCAGGCGAAAATCAGCAAGCGTTATCCGCTGGTCGAGTT
ATTGACAGCACTCGCTTTTTTGCTGGCGAGTCTGGTCTGGCCGGAAAGTGGATGGGCGCTGGCGGTGATGATATTATCCG
CCTGGCTGATTGCTGCGAGCGTCATCGACCTCGACAACCAATGGCTGCCCGATGTTTTTACTCAGGGCGTATTGTGGACC
GGGCTGATTGCGGCATGGGCGCAACAGAGTCCGTTAACACTACAAGATGCAGTTACCGGCGTCCTGGTGGGGTTTATCAC
TTTTTACTCTCTGCGCTGGATAGCCGGAATAGTTCTGCGTAAAGAAGCATTAGGCATGGGCGATGTATTATTGTTCGCTG
CGTTAGGTAGTTGGGTGGGGGCGTTATCACTGCCCAACGTTGCTTTAATCGCCTCATGCTGCGGCCTGATATATGCCGTT
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

46.442

99.257

0.461
  pilD Vibrio campbellii strain DS40M4

42.066

100

0.424
  pilD Neisseria gonorrhoeae MS11

39.689

95.539

0.379
  pilD Acinetobacter nosocomialis M2

37.736

98.513

0.372
  pilD Acinetobacter baumannii D1279779

37.358

98.513

0.368