Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   V6S34_RS20325 Genome accession   NZ_CP145671
Coordinates   4125640..4126449 (+) Length   269 a.a.
NCBI ID   WP_273683860.1    Uniprot ID   -
Organism   Escherichia coli strain S1-ZIM-01-A     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 4120640..4131449
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  V6S34_RS20320 (V6S34_20320) sslE 4120874..4125442 (+) 4569 WP_001547021.1 lipoprotein metalloprotease SslE -
  V6S34_RS20325 (V6S34_20325) pilD 4125640..4126449 (+) 810 WP_273683860.1 prepilin peptidase PppA Machinery gene
  V6S34_RS20330 (V6S34_20330) gspS2 4126515..4126925 (+) 411 WP_001300497.1 type II secretion system pilot lipoprotein GspS-beta -
  V6S34_RS20335 (V6S34_20335) gspC 4126943..4127902 (+) 960 WP_000135079.1 type II secretion system protein GspC -
  V6S34_RS20340 (V6S34_20340) gspD 4127932..4129992 (+) 2061 WP_001547019.1 type II secretion system secretin GspD -

Sequence

Protein


Download         Length: 269 a.a.        Molecular weight: 29518.09 Da        Isoelectric Point: 8.1571

>NTDB_id=852043 V6S34_RS20325 WP_273683860.1 4125640..4126449(+) (pilD) [Escherichia coli strain S1-ZIM-01-A]
MLFDVFQQYPAAMPVLATVGGLIIGSFLNVVIWRYPIMLRQQMAEFHGEMPSAQSKISLALPRSHCPHCQQTIRVRDNIP
LFSWLMLKGRCRDCQAKISKRYPLVELLTALAFLLASLVWPESGWALAVMILSAWLIAASVIDLDHQWLPDVFTQGVLWT
GLSAAWAQQSPLTLQDAVTGVLVGFIAFYSLRWIAGIVLRKEALGMGDVLLFAALGSWVGPLSLPNVALIASCCGLIYAV
ITKRGSTTLPFEPCLSLGGIATIYLQALF

Nucleotide


Download         Length: 810 bp        

>NTDB_id=852043 V6S34_RS20325 WP_273683860.1 4125640..4126449(+) (pilD) [Escherichia coli strain S1-ZIM-01-A]
ATGCTTTTTGATGTTTTTCAGCAATACCCTGCGGCGATGCCCGTCCTGGCAACCGTCGGAGGATTGATTATAGGTAGTTT
TTTGAATGTGGTGATTTGGCGTTACCCCATCATGCTGCGCCAACAAATGGCGGAGTTTCACGGTGAAATGCCGAGTGCGC
AGTCAAAAATAAGCCTGGCGCTGCCACGTTCGCACTGTCCACATTGTCAGCAGACCATCCGCGTTCGTGACAATATTCCG
CTGTTCTCCTGGCTGATGCTCAAAGGGCGCTGCCGCGACTGTCAGGCGAAAATCAGCAAGCGTTATCCGCTGGTGGAGTT
ATTGACGGCACTCGCTTTTTTGCTGGCGAGTCTGGTCTGGCCGGAAAGTGGATGGGCGCTGGCGGTGATGATATTATCCG
CCTGGCTGATTGCCGCGAGCGTCATTGACCTCGATCACCAATGGCTGCCCGATGTTTTTACTCAGGGCGTATTGTGGACG
GGACTGAGTGCGGCATGGGCGCAGCAGAGCCCGCTCACGCTACAAGATGCAGTTACCGGCGTCCTGGTGGGGTTTATCGC
TTTTTACTCCCTGCGCTGGATAGCCGGAATAGTTCTGCGTAAAGAAGCATTAGGCATGGGCGATGTATTATTGTTCGCTG
CGTTAGGTAGTTGGGTGGGGCCGTTGTCGCTACCCAATGTTGCTTTAATCGCATCATGCTGCGGCCTGATATATGCCGTT
ATTACAAAAAGAGGATCAACCACACTGCCTTTTGAACCGTGTTTAAGTCTGGGCGGTATAGCAACAATTTATCTACAGGC
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

45.693

99.257

0.454
  pilD Vibrio campbellii strain DS40M4

41.948

99.257

0.416
  pilD Acinetobacter nosocomialis M2

37.736

98.513

0.372
  pilD Neisseria gonorrhoeae MS11

38.521

95.539

0.368
  pilD Acinetobacter baumannii D1279779

37.358

98.513

0.368