Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   NBY12_RS19000 Genome accession   NZ_CP098223
Coordinates   3976683..3977492 (-) Length   269 a.a.
NCBI ID   WP_001332999.1    Uniprot ID   -
Organism   Escherichia coli strain Z0117EC0005     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 3971683..3982492
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  NBY12_RS18985 (NBY12_19005) gspD 3973148..3975208 (-) 2061 WP_032303780.1 type II secretion system secretin GspD -
  NBY12_RS18990 (NBY12_19010) gspC 3975238..3976191 (-) 954 WP_000135097.1 type II secretion system protein GspC -
  NBY12_RS18995 (NBY12_19015) gspS2 3976207..3976617 (-) 411 WP_001332998.1 type II secretion system pilot lipoprotein GspS-beta -
  NBY12_RS19000 (NBY12_19020) pilD 3976683..3977492 (-) 810 WP_001332999.1 prepilin peptidase PppA Machinery gene

Sequence

Protein


Download         Length: 269 a.a.        Molecular weight: 29445.12 Da        Isoelectric Point: 8.3801

>NTDB_id=598532 NBY12_RS19000 WP_001332999.1 3976683..3977492(-) (pilD) [Escherichia coli strain Z0117EC0005]
MLFDVFQQYPAAMPILATVGGLIIGSFLNVVIWRYPIMIRQQMAEFHGEMPSAQSKISLALPRSHCPHCQQTIRVRDNIP
LLSWLMLKGRCRDCQAKISKRYPLVELLTALAFLLASLVWPESGWGLAVMILSAWLIAASIIDLDNQWLPDVFTQGVLWT
GLIAAWAQQSPLTLQDAVTGVLVGFITFYSLRWIAGIILRKEALGMGDVLLFAALGGWVGALSLPNVALIASCCGLIYAV
ITKRGSTTLPFGPCLSLGGIATLYLQVLF

Nucleotide


Download         Length: 810 bp        

>NTDB_id=598532 NBY12_RS19000 WP_001332999.1 3976683..3977492(-) (pilD) [Escherichia coli strain Z0117EC0005]
ATGCTTTTTGATGTTTTTCAGCAATACCCTGCGGCGATGCCCATACTGGCAACCGTAGGAGGATTGATCATCGGCAGTTT
TTTGAATGTGGTGATTTGGCGTTATCCCATCATGATTCGCCAACAAATGGCGGAGTTTCACGGTGAAATGCCGAGTGCGC
AGTCAAAAATAAGCCTTGCGCTACCGCGTTCGCACTGTCCGCATTGTCAGCAGACCATCCGCGTTCGTGACAATATTCCG
CTGCTCTCCTGGTTGATGCTCAAAGGGCGCTGCCGTGATTGTCAGGCGAAAATCAGCAAGCGTTATCCGCTGGTGGAGTT
ATTGACGGCACTCGCTTTTTTGCTGGCGAGTCTGGTCTGGCCGGAAAGTGGATGGGGGCTGGCGGTGATGATATTATCCG
CCTGGCTTATTGCCGCGAGCATCATCGACCTTGATAACCAATGGCTGCCCGATGTTTTTACTCAGGGCGTATTGTGGACA
GGACTGATTGCGGCATGGGCGCAACAGAGTCCGTTAACGCTACAAGACGCAGTTACCGGCGTCCTGGTGGGATTTATCAC
TTTTTACTCCCTGCGCTGGATAGCCGGAATAATTCTGCGTAAAGAAGCATTAGGCATGGGCGATGTATTACTCTTCGCCG
CGTTAGGTGGCTGGGTGGGCGCGTTGTCGCTGCCCAATGTGGCTTTAATCGCCTCATGCTGCGGCCTGATATATGCCGTT
ATTACAAAAAGAGGATCAACCACACTGCCTTTTGGACCGTGTTTAAGTCTGGGCGGTATAGCAACACTTTATCTACAGGT
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

41.697

100

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