Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   R4V96_RS03700 Genome accession   NZ_CP137162
Coordinates   760656..761465 (+) Length   269 a.a.
NCBI ID   WP_057075859.1    Uniprot ID   -
Organism   Escherichia coli strain YA-1     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 755656..766465
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  R4V96_RS03695 (R4V96_03685) - 759337..760317 (+) 981 WP_000399648.1 IS110-like element IS621 family transposase -
  R4V96_RS03700 (R4V96_03690) pilD 760656..761465 (+) 810 WP_057075859.1 prepilin peptidase PppA Machinery gene
  R4V96_RS03705 (R4V96_03695) gspS2 761531..761941 (+) 411 WP_001365897.1 type II secretion system pilot lipoprotein GspS-beta -
  R4V96_RS03710 (R4V96_03700) gspC 761959..762918 (+) 960 WP_000135063.1 type II secretion system protein GspC -
  R4V96_RS03715 (R4V96_03705) gspD 762948..765008 (+) 2061 WP_000498824.1 type II secretion system secretin GspD -

Sequence

Protein


Download         Length: 269 a.a.        Molecular weight: 29538.25 Da        Isoelectric Point: 8.3829

>NTDB_id=820463 R4V96_RS03700 WP_057075859.1 760656..761465(+) (pilD) [Escherichia coli strain YA-1]
MLFDVFQQYPVAMPILATVGGLIIGSFLNVVIWRYPIMLRQQMAEFHGEMPSAQSKISLALPRSHCPHCQQTIRIRDNIP
LLSWLMLKGRCRDCQAKISKRYPLVELLTALAFLLASLVWPESGWALAVMILSAWLIAASIIDLDHQWLPDVFTQGVLWT
GLIAAWAQQSPLTLQDAVTGVLVGFITFYSLRWIAGIVLRKEALGMGDVLLFAALGSWVGPLSLPNVALIASCCGLIYAV
ITKRGSTTLPFGPCLSLGGIATIYLQALF

Nucleotide


Download         Length: 810 bp        

>NTDB_id=820463 R4V96_RS03700 WP_057075859.1 760656..761465(+) (pilD) [Escherichia coli strain YA-1]
ATGCTTTTTGATGTTTTTCAGCAATACCCCGTGGCGATGCCCATACTGGCTACCGTCGGAGGATTAATCATCGGTAGTTT
TTTGAATGTGGTGATTTGGCGTTACCCCATCATGCTGCGCCAACAAATGGCGGAGTTTCATGGAGAAATGCCGAGTGCGC
AGTCAAAAATAAGCCTTGCGCTACCGCGTTCGCACTGCCCACATTGTCAGCAGACCATCCGGATACGTGACAATATTCCG
CTGCTCTCCTGGTTGATGCTCAAAGGGCGCTGCCGCGACTGTCAGGCGAAAATCAGCAAGCGTTATCCGCTGGTGGAGTT
ATTGACGGCACTCGCTTTTTTGCTGGCGAGTCTGGTCTGGCCGGAAAGTGGATGGGCGCTGGCGGTGATGATATTATCCG
CCTGGCTGATTGCCGCGAGCATCATCGACCTCGATCACCAATGGCTGCCCGATGTTTTTACTCAGGGCGTATTGTGGACG
GGACTAATTGCGGCATGGGCGCAGCAGAGCCCGCTCACGCTACAAGATGCAGTCACCGGCGTCCTGGTGGGGTTTATCAC
TTTTTACTCTCTGCGCTGGATAGCCGGAATAGTTCTGCGTAAAGAAGCATTAGGCATGGGCGATGTATTATTGTTCGCTG
CGTTAGGTAGTTGGGTGGGGCCGTTGTCGCTACCCAATGTTGCTTTAATCGCCTCATGCTGCGGCCTGATATATGCCGTT
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

45.693

99.257

0.454
  pilD Vibrio campbellii strain DS40M4

42.322

99.257

0.42
  pilD Acinetobacter nosocomialis M2

38.491

98.513

0.379
  pilD Neisseria gonorrhoeae MS11

39.3

95.539

0.375
  pilD Acinetobacter baumannii D1279779

38.113

98.513

0.375