Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   V6S43_RS20170 Genome accession   NZ_CP145636
Coordinates   4110024..4110833 (+) Length   269 a.a.
NCBI ID   WP_001335851.1    Uniprot ID   -
Organism   Escherichia coli strain S1-ISR-02-A     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 4105024..4115833
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  V6S43_RS20165 (V6S43_20170) sslE 4105338..4109894 (+) 4557 WP_001034479.1 lipoprotein metalloprotease SslE -
  V6S43_RS20170 (V6S43_20175) pilD 4110024..4110833 (+) 810 WP_001335851.1 prepilin peptidase PppA Machinery gene
  V6S43_RS20175 (V6S43_20180) gspS2 4110899..4111309 (+) 411 WP_001305092.1 type II secretion system pilot lipoprotein GspS-beta -
  V6S43_RS20180 (V6S43_20185) gspC 4111327..4112286 (+) 960 WP_001305091.1 type II secretion system protein GspC -
  V6S43_RS20185 (V6S43_20190) gspD 4112316..4114376 (+) 2061 WP_000498847.1 type II secretion system secretin GspD -

Sequence

Protein


Download         Length: 269 a.a.        Molecular weight: 29458.08 Da        Isoelectric Point: 8.3801

>NTDB_id=851468 V6S43_RS20170 WP_001335851.1 4110024..4110833(+) (pilD) [Escherichia coli strain S1-ISR-02-A]
MLFDVFQQYPAGMPILATVGGLIIGSFLNVVIWRYPIMLRQQMAEFHGEMPSTQSKINLALPRSHCPHCQQTIRVRDNIP
LLSWLMLKGRCRDCQAKISKRYPLVELLTALAFLLASLVWPESGWGLAVMILSAWLIAASVIDLDNQWLPDVFTQGVLWT
GLIAAWAQQSPLTLQDAVTGVLVGFITFYSLRWIAGIVLRKEALGMGDVLLFAALGGWVGPLSLPNVALIASCCGLIYAV
ITKRGSTTLPFGPCLSLGGIATLYLQALF

Nucleotide


Download         Length: 810 bp        

>NTDB_id=851468 V6S43_RS20170 WP_001335851.1 4110024..4110833(+) (pilD) [Escherichia coli strain S1-ISR-02-A]
ATGCTTTTTGATGTTTTTCAGCAATACCCCGCGGGGATGCCCATACTGGCAACCGTCGGAGGATTGATCATCGGCAGTTT
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

45.693

99.257

0.454
  pilD Vibrio campbellii strain DS40M4

41.697

100

0.42
  pilD Neisseria gonorrhoeae MS11

39.689

95.539

0.379
  pilD Acinetobacter nosocomialis M2

38.113

98.513

0.375
  pilD Acinetobacter baumannii D1279779

37.736

98.513

0.372