Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   JNN48_RS04085 Genome accession   NZ_CP068818
Coordinates   858830..859639 (+) Length   269 a.a.
NCBI ID   WP_000895873.1    Uniprot ID   -
Organism   Escherichia coli strain RIVM_C028803     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 853830..864639
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  JNN48_RS04080 (JNN48_04080) sslE 854107..858666 (+) 4560 WP_029701459.1 lipoprotein metalloprotease SslE -
  JNN48_RS04085 (JNN48_04085) pilD 858830..859639 (+) 810 WP_000895873.1 prepilin peptidase PppA Machinery gene
  JNN48_RS04090 (JNN48_04090) gspS2 859705..860115 (+) 411 WP_001305972.1 type II secretion system pilot lipoprotein GspS-beta -
  JNN48_RS04095 (JNN48_04095) gspC 860133..861092 (+) 960 WP_014639304.1 type II secretion system protein GspC -
  JNN48_RS04100 (JNN48_04100) gspD 861122..863182 (+) 2061 WP_029701460.1 type II secretion system secretin GspD -

Sequence

Protein


Download         Length: 269 a.a.        Molecular weight: 29402.98 Da        Isoelectric Point: 8.3801

>NTDB_id=462859 JNN48_RS04085 WP_000895873.1 858830..859639(+) (pilD) [Escherichia coli strain RIVM_C028803]
MLFDVFQQYPAAMPILATVGGLIIGSFLNVVIWRYPIMLRQQMAEFHGETPSTQSKISLALPRSHCPHCQQTIRVRDNIP
LLSWLMLKGRCRDCQAKISKRYPLVELLTALAFLLASLVWPESGWGLAVMILSAWLIAASIIDLDNQWLPDVFTQGVLWT
GLIAAWAQQSPLTLQDAVTGVLVGFITFYSLRWIAGIVLRKEALGMGDVLLFAALGGWVGALSLPNVALIASCCGLIYAV
ITKRGSTTLPFGPCLSLGGIATLYLQALF

Nucleotide


Download         Length: 810 bp        

>NTDB_id=462859 JNN48_RS04085 WP_000895873.1 858830..859639(+) (pilD) [Escherichia coli strain RIVM_C028803]
ATGCTTTTTGATGTTTTTCAGCAATACCCCGCGGCGATGCCCATACTGGCAACCGTCGGAGGATTGATCATCGGCAGTTT
TTTGAATGTGGTGATTTGGCGTTACCCCATCATGCTGCGCCAACAAATGGCGGAGTTTCATGGTGAAACGCCGAGTACGC
AGTCAAAAATAAGCCTTGCGCTACCGCGTTCGCACTGTCCGCATTGCCAGCAGACTATCCGCGTTCGTGACAATATTCCG
CTGCTCTCATGGTTGATGCTCAAAGGGCGCTGCCGCGACTGTCAGGCGAAAATCAGCAAGCGTTATCCGCTGGTTGAGTT
ATTGACAGCACTTGCTTTTTTGCTGGCGAGTCTGGTGTGGCCAGAAAGTGGATGGGGACTGGCGGTGATGATATTATCCG
CGTGGCTGATTGCCGCGAGCATCATCGACCTCGACAACCAATGGCTGCCCGATGTTTTTACTCAGGGCGTATTGTGGACC
GGGCTGATTGCGGCATGGGCGCAACAGAGTCCGTTAACGCTACAAGACGCAGTCACCGGCGTCCTGGTGGGGTTTATCAC
TTTTTACTCCCTGCGCTGGATAGCCGGAATAGTTCTGCGTAAAGAAGCATTAGGCATGGGCGATGTATTACTCTTCGCCG
CTTTAGGTGGCTGGGTGGGGGCGTTATCACTGCCCAACGTTGCTTTAATCGCCTCATGCTGCGGCCTGATATATGCCGTT
ATTACAAAAAGAGGATCAACCACACTGCCTTTTGGACCGTGTTTAAGTCTGGGCGGTATAGCAACACTTTATCTACAGGC
ATTGTTTTAA

Domains

Predicted by InterProScan.

Type IV leader peptidase family (Peptidase_A24)

(130-239)

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(21-118)


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

41.026

100

0.416
  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