Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD/pppA   Type   Machinery gene
Locus tag   BW25113_RS15435 Genome accession   NZ_CP009273
Coordinates   3106902..3107711 (-) Length   269 a.a.
NCBI ID   WP_001333829.1    Uniprot ID   Q46836
Organism   Escherichia coli BW25113 strain K-12     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 3101902..3112711
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  BW25113_RS26205 yqgH 3102676..3102759 (-) 84 WP_211180506.1 protein YqgH -
  BW25113_RS15405 (BW25113_2966) yqgA 3102912..3103619 (+) 708 WP_000234514.1 DUF554 domain-containing protein -
  BW25113_RS15415 (BW25113_2968) yghD 3103949..3104485 (-) 537 WP_000942785.1 GspM family type II secretion system protein YghD -
  BW25113_RS15420 (BW25113_2969) gspL 3104487..3105452 (-) 966 Protein_2984 type II secretion system protein GspL -
  BW25113_RS15425 (BW25113_2970) gspC 3105413..3106408 (-) 996 WP_000135077.1 type II secretion system protein GspC -
  BW25113_RS15430 (BW25113_2971) gspS2 3106426..3106836 (-) 411 WP_001324279.1 type II secretion system pilot lipoprotein GspS-beta -
  BW25113_RS15435 (BW25113_2972) pilD/pppA 3106902..3107711 (-) 810 WP_001333829.1 prepilin peptidase PppA Machinery gene
  BW25113_RS15440 (BW25113_4466) sslE 3107909..3112471 (-) 4563 WP_001034469.1 lipoprotein metalloprotease SslE -

Regulatory network

Positive effect      
Negative effect
Regulator Target Regulation
  sxy/tfoX pilD/pppA positive effect
  sxy/tfoX fimT/comN/ppdA positive effect
  sxy/tfoX comE1/ybaV positive effect
  sxy/tfoX pilN/comB/hofN positive effect
  sxy/tfoX pilO/comC/hofO positive effect
  sxy/tfoX pilB/hofB positive effect
  sxy/tfoX pilP/comD/hofP positive effect
  sxy/tfoX comF/gntX positive effect
  sxy/tfoX rec2/ycaI positive effect
  sxy/tfoX pilM/comA/hofM positive effect
  sxy/tfoX pilA/ppdD positive effect
  sxy/tfoX fimU/comO/ppdB positive effect
  sxy/tfoX comP/ygdB positive effect
  sxy/tfoX pilV/comQ/ppdC positive effect
  sxy/tfoX ssb positive effect
  sxy/tfoX mshC/yggT positive effect
  sxy/tfoX pilQ/comE/hofQ positive effect
  sxy/tfoX dprA/smf positive effect
  sxy/tfoX pilT/yggR positive effect
  sxy/tfoX pilC/hofC positive effect
  sxy/tfoX pilB/ycgB positive effect
  sxy/tfoX comM/yifB positive effect

Sequence

Protein


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

>NTDB_id=1438 BW25113_RS15435 WP_001333829.1 3106902..3107711(-) (pilD/pppA) [Escherichia coli BW25113 strain K-12]
MLFDVFQQYPTAMPVLATVGGLIIGSFLNVVIWRYPIMLRQQMAEFHGEMSSAQSKISLALPRSHCPHCQQTIRIRDNIP
LFSWLMLKGRCRDCQAKISKRYPLVELLTALAFLLASLVWPESGWGLAVMILSAWLIAASVIDLDHQWLPDVFTQGVLWT
GLIAAWAQQSPLTLQDAVTGVLVGFITFYSLRWIAGIVLRKEALGMGDVLLFAALGGWVGALSLPNVALIASCCGLIYAV
ITKRGSTTLPFGPCLSLGGIATLYLQALF

Nucleotide


Download         Length: 810 bp        

>NTDB_id=1438 BW25113_RS15435 WP_001333829.1 3106902..3107711(-) (pilD/pppA) [Escherichia coli BW25113 strain K-12]
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

Multiple sequence alignment