Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   JJW05_RS20695 Genome accession   NZ_CP068279
Coordinates   4254554..4255363 (-) Length   269 a.a.
NCBI ID   WP_001333829.1    Uniprot ID   Q46836
Organism   Escherichia coli strain CY708     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 4249554..4260363
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  JJW05_RS20660 yqgH 4250328..4250411 (-) 84 WP_211180506.1 protein YqgH -
  JJW05_RS20665 (JJW05_20560) yqgA 4250564..4251271 (+) 708 WP_000234514.1 DUF554 domain-containing protein -
  JJW05_RS20675 (JJW05_20570) yghD 4251601..4252137 (-) 537 WP_000942785.1 GspM family type II secretion system protein YghD -
  JJW05_RS20680 (JJW05_20575) gspL 4252139..4253113 (-) 975 Protein_4061 type II secretion system protein GspL -
  JJW05_RS20685 (JJW05_20580) gspC 4253065..4254060 (-) 996 WP_000135077.1 type II secretion system protein GspC -
  JJW05_RS20690 (JJW05_20585) gspS2 4254078..4254488 (-) 411 WP_001324279.1 type II secretion system pilot lipoprotein GspS-beta -
  JJW05_RS20695 (JJW05_20590) pilD 4254554..4255363 (-) 810 WP_001333829.1 prepilin peptidase PppA Machinery gene
  JJW05_RS20700 (JJW05_20595) sslE 4255561..4260123 (-) 4563 WP_001034469.1 lipoprotein metalloprotease SslE -

Sequence

Protein


Download         Length: 269 a.a.        Molecular weight: 29466.06 Da        Isoelectric Point: 8.3829

>NTDB_id=459461 JJW05_RS20695 WP_001333829.1 4254554..4255363(-) (pilD) [Escherichia coli strain CY708]
MLFDVFQQYPTAMPVLATVGGLIIGSFLNVVIWRYPIMLRQQMAEFHGEMSSAQSKISLALPRSHCPHCQQTIRIRDNIP
LFSWLMLKGRCRDCQAKISKRYPLVELLTALAFLLASLVWPESGWGLAVMILSAWLIAASVIDLDHQWLPDVFTQGVLWT
GLIAAWAQQSPLTLQDAVTGVLVGFITFYSLRWIAGIVLRKEALGMGDVLLFAALGGWVGALSLPNVALIASCCGLIYAV
ITKRGSTTLPFGPCLSLGGIATLYLQALF

Nucleotide


Download         Length: 810 bp        

>NTDB_id=459461 JJW05_RS20695 WP_001333829.1 4254554..4255363(-) (pilD) [Escherichia coli strain CY708]
ATGCTTTTTGATGTTTTTCAGCAATACCCCACGGCGATGCCCGTCCTGGCAACCGTCGGAGGATTGATCATCGGCAGTTT
TTTGAATGTGGTGATTTGGCGTTACCCAATCATGCTGCGCCAACAAATGGCGGAGTTTCACGGTGAAATGTCGAGTGCGC
AGTCAAAAATAAGCCTTGCGCTACCGCGTTCGCACTGCCCACATTGTCAGCAGACCATCCGGATACGTGACAATATTCCG
CTGTTCTCCTGGCTGATGCTCAAAGGGCGCTGCCGCGACTGTCAGGCGAAAATCAGCAAGCGTTATCCGCTGGTGGAGTT
ATTGACAGCACTTGCTTTTTTGCTGGCGAGTCTGGTCTGGCCAGAAAGTGGATGGGGGCTGGCGGTGATGATATTATCCG
CCTGGCTGATTGCCGCGAGTGTCATCGACCTCGATCACCAATGGCTGCCCGATGTTTTTACTCAGGGCGTATTGTGGACA
GGACTGATTGCGGCATGGGCGCAGCAGAGTCCGCTCACGCTACAAGATGCAGTCACCGGCGTCCTGGTGGGATTTATCAC
TTTTTACTCTCTGCGTTGGATAGCCGGAATAGTTCTGCGTAAAGAAGCATTAGGCATGGGCGATGTATTACTTTTCGCCG
CGTTAGGTGGCTGGGTGGGGGCATTGTCGCTGCCCAATGTTGCTTTAATCGCCTCATGCTGCGGCCTGATATATGCCGTT
ATTACAAAAAGAGGATCAACCACACTGCCTTTTGGACCGTGTTTAAGTCTGGGCGGTATAGCAACACTTTATCTACAGGC
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
  AlphaFold DB Q46836

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

44.944

99.257

0.446
  pilD Vibrio campbellii strain DS40M4

42.435

100

0.428
  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