Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   RG27_RS05565 Genome accession   NZ_CP010121
Coordinates   1084200..1085009 (+) Length   269 a.a.
NCBI ID   WP_000895878.1    Uniprot ID   -
Organism   Escherichia coli strain C4     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 1079200..1090009
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  RG27_RS05555 (RG27_05290) sslE 1079508..1084070 (+) 4563 WP_001034472.1 lipoprotein metalloprotease SslE -
  RG27_RS05565 (RG27_05295) pilD 1084200..1085009 (+) 810 WP_000895878.1 prepilin peptidase PppA Machinery gene
  RG27_RS05570 (RG27_05300) gspS2 1085075..1085485 (+) 411 WP_001309757.1 type II secretion system pilot lipoprotein GspS-beta -
  RG27_RS05575 (RG27_05305) gspC 1085503..1086462 (+) 960 WP_000135091.1 type II secretion system protein GspC -
  RG27_RS05580 (RG27_05310) gspD 1086492..1088552 (+) 2061 WP_000498830.1 type II secretion system secretin GspD -

Sequence

Protein


Download         Length: 269 a.a.        Molecular weight: 29415.05 Da        Isoelectric Point: 8.3801

>NTDB_id=115343 RG27_RS05565 WP_000895878.1 1084200..1085009(+) (pilD) [Escherichia coli strain C4]
MLFDVFQQYPAAMPVLATVGGLIIGSFLNVVIWRYPIMLRQQMAEFHGEMPSTQSKISLALPRSHCPHCQQTIRVRDNIP
LLSWLMLKGRCRDCQAKISKRYPLVELLTALAFLLASLVWPESGWGLAVMILSAWLIAASIIDLDNQWLPDVFTQGVLWT
GLIAAWAQQSPLTLQDAVTGVLVGFITFYSLRWIAGIVLRKEALGMGDVLLFAALGGWVGALSLPNVALIASCCGLIYAV
ITKRGSTPLPFGPCLSLGGIATLYLQALF

Nucleotide


Download         Length: 810 bp        

>NTDB_id=115343 RG27_RS05565 WP_000895878.1 1084200..1085009(+) (pilD) [Escherichia coli strain C4]
ATGCTTTTTGATGTTTTTCAGCAATACCCCGCGGCGATGCCCGTCCTGGCTACCGTCGGAGGATTGATTATCGGCAGTTT
TTTGAATGTGGTGATTTGGCGTTACCCCATCATGCTGCGCCAACAAATGGCGGAGTTTCACGGTGAAATGCCGAGTACGC
AGTCAAAAATAAGCCTGGCGCTGCCACGCTCGCACTGTCCGCATTGCCAGCAGACTATCCGCGTTCGTGACAATATTCCG
CTGCTCTCCTGGCTGATGCTCAAAGGGCGCTGCCGCGACTGTCAGGCGAAAATCAGCAAGCGTTATCCGCTGGTGGAGTT
ATTGACGGCACTCGCTTTTTTGCTGGCGAGTCTGGTGTGGCCAGAAAGTGGATGGGGGCTGGCGGTGATGATATTATCCG
CCTGGCTGATTGCCGCGAGCATCATTGACCTCGATAACCAATGGCTGCCCGATGTTTTTACTCAGGGCGTATTGTGGACC
GGGCTGATTGCGGCATGGGCGCAGCAGAGTCCGTTAACGCTACAAGACGCAGTTACCGGCGTACTGGTGGGATTTATCAC
TTTTTACTCCCTGCGCTGGATAGCCGGAATAGTTCTGCGTAAAGAAGCATTAGGCATGGGCGATGTATTACTCTTCGCCG
CTTTAGGTGGCTGGGTGGGGGCGTTATCACTGCCCAATGTTGCTTTAATCGCCTCATGCTGCGGCCTGATATATGCCGTT
ATTACAAAAAGAGGATCAACCCCGCTGCCTTTTGGACCGTGTTTAAGTCTGGGCGGTATAGCAACACTTTATCTACAGGC
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

46.067

99.257

0.457
  pilD Vibrio campbellii strain DS40M4

42.066

100

0.424
  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

Multiple sequence alignment