Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   NL409_RS12935 Genome accession   NZ_CP116994
Coordinates   2251999..2252808 (-) Length   269 a.a.
NCBI ID   WP_112860935.1    Uniprot ID   -
Organism   Escherichia coli strain MLI108K1     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 2246999..2257808
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  NL409_RS12920 (NL409_012880) gspD 2248456..2250516 (-) 2061 WP_000498824.1 type II secretion system secretin GspD -
  NL409_RS12925 (NL409_012885) gspC 2250546..2251505 (-) 960 WP_000135069.1 type II secretion system protein GspC -
  NL409_RS12930 (NL409_012890) gspS2 2251523..2251933 (-) 411 WP_001324279.1 type II secretion system pilot lipoprotein GspS-beta -
  NL409_RS12935 (NL409_012895) pilD 2251999..2252808 (-) 810 WP_112860935.1 prepilin peptidase PppA Machinery gene
  NL409_RS12940 (NL409_012900) sslE 2252956..2257524 (-) 4569 WP_001034511.1 lipoprotein metalloprotease SslE -

Sequence

Protein


Download         Length: 269 a.a.        Molecular weight: 29482.14 Da        Isoelectric Point: 8.3829

>NTDB_id=715678 NL409_RS12935 WP_112860935.1 2251999..2252808(-) (pilD) [Escherichia coli strain MLI108K1]
MLFDVFQQYPAAMPILATVGGLIIGSFLNVVIWRYPIMLRQQMAEFHGEMPSAQSKISLALPRSHCPHCQQTIRIRDNIP
LLSWLMLKGRCRDCQAKISKRYPLVELLTALAFLLASLVWPESGWALAVMILSAWLIAASVIDLDHQWLPDVFTQGVLWT
GLIAAWAQQSPLTLQDAVTSVLVGFIAFYSLRWIAGVVLRKEALGMGDVLLFAALGSWVGPLSLPNVALIASCCGLIYAV
ITKRGSTTLPFGPCLSLGGIATIYLQALF

Nucleotide


Download         Length: 810 bp        

>NTDB_id=715678 NL409_RS12935 WP_112860935.1 2251999..2252808(-) (pilD) [Escherichia coli strain MLI108K1]
ATGCTTTTTGATGTTTTTCAGCAATACCCCGCGGCGATGCCCATACTGGCAACCGTCGGAGGATTGATCATCGGCAGTTT
TTTGAATGTGGTGATTTGGCGTTACCCCATCATGCTGCGCCAACAAATGGCGGAGTTTCATGGTGAAATGCCGAGTGCGC
AGTCAAAAATAAGCCTTGCGCTACCGCGTTCCCACTGCCCACATTGTCAGCAGACCATCCGGATACGTGACAATATTCCG
CTGCTCTCCTGGCTGATGCTCAAAGGGCGCTGCCGTGATTGTCAGGCGAAAATCAGCAAGCGTTATCCGCTGGTGGAGTT
ATTGACGGCACTCGCTTTTTTGCTGGCGAGTCTGGTCTGGCCGGAAAGTGGATGGGCGCTGGCGGTGATGATATTATCCG
CCTGGCTGATTGCCGCGAGCGTCATTGACCTCGATCACCAATGGCTGCCCGATGTTTTTACTCAGGGCGTATTGTGGACG
GGACTGATTGCGGCATGGGCGCAGCAGAGCCCGCTCACGCTACAAGATGCAGTTACCAGCGTCCTGGTGGGGTTTATCGC
TTTTTACTCCCTGCGCTGGATAGCCGGAGTAGTTCTGCGTAAAGAAGCATTAGGCATGGGCGATGTATTATTGTTCGCTG
CGTTAGGTAGTTGGGTGGGGCCGTTGTCGCTACCCAATGTTGCTTTAATCGCATCATGCTGCGGCCTGATATATGCCGTT
ATTACAAAAAGAGGATCAACCACACTGCCTTTTGGACCGTGTTTAAGTCTGGGCGGTATAGCAACAATTTATCTACAGGC
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

45.318

99.257

0.45
  pilD Vibrio campbellii strain DS40M4

41.948

99.257

0.416
  pilD Acinetobacter nosocomialis M2

38.491

98.513

0.379
  pilD Acinetobacter baumannii D1279779

38.113

98.513

0.375
  pilD Neisseria gonorrhoeae MS11

38.911

95.539

0.372