Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   JM188_RS19630 Genome accession   NZ_LR890299
Coordinates   4129769..4130578 (+) Length   269 a.a.
NCBI ID   WP_000895866.1    Uniprot ID   -
Organism   Escherichia coli strain MSB1_3B isolate MSB1_3B     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 4124769..4135578
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  JM188_RS19625 sslE 4125074..4129639 (+) 4566 WP_001034531.1 lipoprotein metalloprotease SslE -
  JM188_RS19630 pilD 4129769..4130578 (+) 810 WP_000895866.1 prepilin peptidase PppA Machinery gene
  JM188_RS19635 gspS2 4130644..4131054 (+) 411 WP_001298257.1 type II secretion system pilot lipoprotein GspS-beta -
  JM188_RS19640 gspC 4131072..4132031 (+) 960 WP_024190000.1 type II secretion system protein GspC -
  JM188_RS19645 gspD 4132061..4134121 (+) 2061 WP_000498848.1 type II secretion system secretin GspD -

Sequence

Protein


Download         Length: 269 a.a.        Molecular weight: 29419.04 Da        Isoelectric Point: 8.3801

>NTDB_id=1013890 JM188_RS19630 WP_000895866.1 4129769..4130578(+) (pilD) [Escherichia coli strain MSB1_3B isolate MSB1_3B]
MLFDVFQQYPAAMPILATVGGLIIGSFLNVVIWRYPIMLRQQMAEFHGEMPSAQSKISLALPRSHCPHCQQTIRVRDNIP
LLSWLMLKGRCRDCQAKISKRYPLVELLTALTFLLASLVWPESGWGLAVMILSAWLIAASVIDLDNQWLPDVFTQGVLWT
GLIAAWAQQSPLTLQDAVTGVLVGFITFYSLRWIAGIVLRKEALGMGDVLLFAALGGWVGALSLPNVALIASCCGLIYAV
ITKRGSTTLPFGPCLSLGGIATLYLQALF

Nucleotide


Download         Length: 810 bp        

>NTDB_id=1013890 JM188_RS19630 WP_000895866.1 4129769..4130578(+) (pilD) [Escherichia coli strain MSB1_3B isolate MSB1_3B]
ATGCTTTTTGATGTTTTTCAGCAATACCCTGCGGCGATGCCCATACTGGCAACCGTCGGAGGATTGATCATCGGCAGTTT
TTTGAATGTGGTGATTTGGCGTTACCCCATCATGCTGCGCCAACAAATGGCGGAGTTTCATGGTGAAATGCCGAGTGCGC
AGTCAAAAATAAGCCTTGCGCTACCGCGTTCGCACTGTCCGCATTGCCAGCAGACCATCCGCGTTCGTGACAATATTCCG
CTGCTCTCATGGTTGATGCTCAAAGGGCGCTGCCGCGACTGTCAGGCGAAAATCAGCAAGCGTTATCCGCTGGTTGAGTT
ATTGACAGCACTCACTTTTTTGCTGGCGAGTCTGGTGTGGCCAGAAAGTGGATGGGGGCTGGCGGTGATGATATTATCCG
CCTGGCTGATTGCCGCGAGCGTCATTGACCTCGACAACCAATGGCTGCCCGATGTTTTTACTCAGGGCGTATTGTGGACC
GGGCTGATTGCAGCATGGGCGCAACAGAGTCCGTTAACGCTACAAGACGCAGTTACCGGCGTACTGGTGGGATTTATCAC
TTTTTACTCCCTGCGCTGGATAGCCGGAATAGTTCTGCGTAAAGAAGCATTAGGCATGGGCGATGTATTACTCTTCGCTG
CGTTAGGTGGCTGGGTGGGGGCATTATCACTGCCCAATGTTGCTTTAATCGCCTCATGCTGCGGCCTGATATATGCCGTT
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

45.693

99.257

0.454
  pilD Vibrio campbellii strain DS40M4

41.697

100

0.42
  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