Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   PIB88_RS08980 Genome accession   NZ_CP116145
Coordinates   1858540..1859349 (-) Length   269 a.a.
NCBI ID   WP_001305093.1    Uniprot ID   -
Organism   Escherichia coli strain DETEC-P622     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 1853540..1864349
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  PIB88_RS08965 (PIB88_08965) gspD 1854997..1857057 (-) 2061 WP_000498847.1 type II secretion system secretin GspD -
  PIB88_RS08970 (PIB88_08970) gspC 1857087..1858046 (-) 960 WP_001305091.1 type II secretion system protein GspC -
  PIB88_RS08975 (PIB88_08975) gspS2 1858064..1858474 (-) 411 WP_001305092.1 type II secretion system pilot lipoprotein GspS-beta -
  PIB88_RS08980 (PIB88_08980) pilD 1858540..1859349 (-) 810 WP_001305093.1 prepilin peptidase PppA Machinery gene
  PIB88_RS08985 (PIB88_08985) sslE 1859479..1864035 (-) 4557 WP_001034480.1 lipoprotein metalloprotease SslE -

Sequence

Protein


Download         Length: 269 a.a.        Molecular weight: 29448.04 Da        Isoelectric Point: 8.3801

>NTDB_id=708327 PIB88_RS08980 WP_001305093.1 1858540..1859349(-) (pilD) [Escherichia coli strain DETEC-P622]
MLFDVFQQYSAGMPILATVGGLIIGSFLNVVIWRYPIMLRQQMAEFHGEMPSTQSKINLALPRSHCPHCQQTIRVRDNIP
LLSWLMLKGRCRDCQAKISKRYPLVELLTALAFLLASLVWPESGWGLAVMILSAWLIAASVIDLDNQWLPDVFTQGVLWT
GLIAAWAQQSPLTLQDAVTGVLVGFITFYSLRWIAGIVLRKEALGMGDVLLFAALGGWVGPLSLPNVALIASCCGLIYAV
ITKRGSTTLPFGPCLSLGGIATLYLQALF

Nucleotide


Download         Length: 810 bp        

>NTDB_id=708327 PIB88_RS08980 WP_001305093.1 1858540..1859349(-) (pilD) [Escherichia coli strain DETEC-P622]
ATGCTTTTTGATGTTTTTCAGCAATACTCCGCGGGGATGCCCATACTGGCAACCGTCGGAGGATTGATCATCGGCAGTTT
TTTGAATGTGGTGATTTGGCGTTACCCCATCATGCTGCGCCAACAAATGGCGGAGTTTCACGGTGAAATGCCGAGTACGC
AGTCAAAAATAAACCTGGCGCTGCCACGCTCGCACTGTCCGCATTGCCAGCAGACCATCCGCGTTCGTGACAATATTCCG
CTGCTCTCATGGTTGATGCTCAAAGGGCGCTGCCGCGACTGTCAGGCGAAAATCAGCAAGCGTTATCCGCTGGTGGAGTT
ATTGACGGCACTCGCTTTTTTGCTGGCGAGTCTGGTGTGGCCAGAAAGTGGATGGGGGCTGGCGGTGATGATATTATCCG
CCTGGCTGATTGCCGCGAGCGTCATTGACCTCGATAACCAATGGCTGCCCGATGTTTTTACTCAGGGCGTATTGTGGACC
GGGCTGATTGCGGCATGGGCGCAACAGAGTCCGTTAACGCTACAAGACGCAGTTACCGGCGTCCTGGTGGGGTTTATCAC
TTTTTACTCCCTGCGCTGGATAGCCGGAATAGTTCTGCGTAAAGAAGCATTAGGCATGGGCGATGTATTACTTTTCGCTG
CGTTAGGTGGCTGGGTGGGGCCGTTGTCGCTACCCAATGTTGCTTTAATCGCATCATGCTGCGGCCTGATATATGCCGTT
ATTACAAAAAGAGGATCAACCACACTGCCTTTTGGACCGTGTTTAAGTCTGGGCGGTATAGCAACACTTTATCTACAGGC
ATTGTTTTAA

Domains

Predicted by InterProScan.

Type IV leader peptidase family (Peptidase_A24)

(130-239)

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(21-118)


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

45.318

99.257

0.45
  pilD Vibrio campbellii strain DS40M4

41.328

100

0.416
  pilD Acinetobacter nosocomialis M2

38.113

98.513

0.375
  pilD Neisseria gonorrhoeae MS11

39.841

93.309

0.372
  pilD Acinetobacter baumannii D1279779

37.736

98.513

0.372