Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   RM370_RS03885 Genome accession   NZ_CP134716
Coordinates   801842..802651 (+) Length   269 a.a.
NCBI ID   WP_000895858.1    Uniprot ID   -
Organism   Escherichia coli strain RIVM_C040348     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 796842..807651
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  RM370_RS03880 (RM370_03880) sslE 797116..801678 (+) 4563 WP_001034555.1 lipoprotein metalloprotease SslE -
  RM370_RS03885 (RM370_03885) pilD 801842..802651 (+) 810 WP_000895858.1 prepilin peptidase PppA Machinery gene
  RM370_RS03890 (RM370_03890) gspS2 802717..803127 (+) 411 WP_202847154.1 type II secretion system pilot lipoprotein GspS-beta -
  RM370_RS03895 (RM370_03895) gspC 803145..804104 (+) 960 WP_000135098.1 type II secretion system protein GspC -
  RM370_RS03900 (RM370_03900) gspD 804134..806194 (+) 2061 WP_000498844.1 type II secretion system secretin GspD -

Sequence

Protein


Download         Length: 269 a.a.        Molecular weight: 29419.00 Da        Isoelectric Point: 8.3801

>NTDB_id=807599 RM370_RS03885 WP_000895858.1 801842..802651(+) (pilD) [Escherichia coli strain RIVM_C040348]
MLFDVFQQYPAAMPILATAGGLIIGSFLNVVIWRYPIMLRQQMAEFHGETPSTQSKISLALPRSHCPHCQQTIRVRDNIP
LLSWLMLKGRCRDCQAKISKRYPLVELLTALAFLLASLVWPESGWGLAVMILSAWLIAASIIDLDNQWLPDVFTQGVLWT
GLIAAWAQQSPLTLQDAVTGVLVGFITFYSLRWIAGIVLRKEALGMGDVLLFAALGGWVGPLSLPNVALIASCCGLIYAV
ITKRGSTTLPFGPCLSLGGMATLYLQALF

Nucleotide


Download         Length: 810 bp        

>NTDB_id=807599 RM370_RS03885 WP_000895858.1 801842..802651(+) (pilD) [Escherichia coli strain RIVM_C040348]
ATGCTTTTTGATGTTTTTCAGCAATACCCCGCGGCGATGCCCATACTGGCAACCGCAGGAGGATTGATCATCGGCAGTTT
TTTGAATGTGGTGATTTGGCGTTACCCCATCATGCTGCGCCAACAAATGGCGGAGTTTCATGGTGAAACGCCGAGTACGC
AGTCAAAAATAAGCCTTGCGCTACCGCGTTCGCACTGTCCGCATTGCCAGCAGACTATCCGCGTTCGTGACAATATTCCG
CTGCTCTCATGGTTGATGCTCAAAGGGCGCTGCCGCGACTGTCAGGCGAAAATCAGCAAGCGTTATCCGCTGGTTGAGTT
ATTGACAGCACTTGCTTTTTTGCTGGCGAGTCTGGTGTGGCCAGAAAGTGGATGGGGACTGGCGGTGATGATATTATCCG
CGTGGCTGATTGCCGCGAGCATCATCGACCTCGACAACCAATGGCTGCCCGATGTTTTTACTCAGGGCGTATTGTGGACA
GGACTGATTGCGGCATGGGCGCAGCAGAGTCCGTTAACGCTACAAGACGCAGTCACCGGCGTCCTGGTGGGGTTTATCAC
TTTTTACTCCCTGCGCTGGATAGCCGGAATAGTTCTGCGTAAAGAAGCATTAGGCATGGGCGATGTATTACTTTTCGCCG
CTTTAGGTGGCTGGGTGGGGCCGTTGTCGCTACCCAATGTTGCTTTAATCGCATCATGCTGCGGTCTGATATATGCCGTT
ATTACAAAAAGAGGATCAACCACACTGCCTTTTGGACCGTGTTTAAGTCTGGGCGGTATGGCAACACTTTATCTACAGGC
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 Acinetobacter nosocomialis M2

38.491

98.513

0.379
  pilD Acinetobacter baumannii D1279779

38.113

98.513

0.375
  pilD Neisseria gonorrhoeae MS11

38.911

95.539

0.372