Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   LPH28_RS01940 Genome accession   NZ_AP025209
Coordinates   422361..423038 (-) Length   225 a.a.
NCBI ID   WP_000178161.1    Uniprot ID   -
Organism   Escherichia coli strain 2017.06.04CC     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 417361..428038
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  LPH28_RS01925 (VEGS18_A03810) chiA 418728..421421 (+) 2694 WP_000773156.1 bifunctional chitinase/lysozyme -
  LPH28_RS01930 (VEGS18_A03820) bfd 421590..421784 (+) 195 WP_000289085.1 bacterioferritin-associated ferredoxin -
  LPH28_RS01935 (VEGS18_A03830) bfr 421856..422332 (+) 477 WP_000675504.1 bacterioferritin -
  LPH28_RS01940 (VEGS18_A03840) pilD 422361..423038 (-) 678 WP_000178161.1 prepilin peptidase GspO Machinery gene
  LPH28_RS01945 (VEGS18_A03850) gspM 423038..423499 (-) 462 WP_001295161.1 type II secretion system protein GspM -
  LPH28_RS01950 (VEGS18_A03860) gspL 423496..424659 (-) 1164 WP_001115238.1 type II secretion system protein GspL -
  LPH28_RS01955 (VEGS18_A03870) gspK 424674..425657 (-) 984 WP_001058522.1 type II secretion system minor pseudopilin GspK -
  LPH28_RS01960 (VEGS18_A03880) gspJ 425650..426237 (-) 588 WP_000610634.1 type II secretion system minor pseudopilin GspJ -
  LPH28_RS01965 (VEGS18_A03890) gspI 426230..426607 (-) 378 WP_001041743.1 type II secretion system minor pseudopilin GspI -
  LPH28_RS01970 (VEGS18_A03900) gspH 426604..427113 (-) 510 WP_001076044.1 type II secretion system minor pseudopilin GspH -
  LPH28_RS01975 (VEGS18_A03910) gspG 427121..427558 (-) 438 WP_001202874.1 type II secretion system major pseudopilin GspG -

Sequence

Protein


Download         Length: 225 a.a.        Molecular weight: 24898.78 Da        Isoelectric Point: 7.9563

>NTDB_id=76817 LPH28_RS01940 WP_000178161.1 422361..423038(-) (pilD) [Escherichia coli strain 2017.06.04CC]
MTMLLPLFILVGFIAGYFVNAIAYHLSPLEDKTALTFRQVLVHFRQKKYAWHDTVPLILCVAAAIACALAPFTPIVTGAL
FLYFCFVLTLSVIDFRTQLLPDKLTLPLLWLGLVFNAQYGLIDLHDAVYGAVAGYGVLWCVYWGVWLVCHKEGLGYGDFK
LLAAAGAWCGWQTLPMILLIASLGGIGYAIVSQLLQRRTITTIAFGPWLALGSMINLGYLAWISY

Nucleotide


Download         Length: 678 bp        

>NTDB_id=76817 LPH28_RS01940 WP_000178161.1 422361..423038(-) (pilD) [Escherichia coli strain 2017.06.04CC]
ATGACAATGCTACTGCCGCTCTTCATTCTGGTTGGTTTTATTGCAGGTTATTTTGTTAATGCCATCGCCTATCACCTCTC
GCCGTTGGAGGATAAAACGGCGTTAACGTTTCGCCAGGTATTGGTTCATTTCAGGCAAAAAAAATATGCCTGGCATGATA
CAGTGCCCCTGATACTTTGTGTTGCTGCTGCTATCGCCTGCGCCCTGGCACCTTTCACGCCCATCGTGACTGGCGCACTC
TTTCTCTATTTCTGTTTCGTACTCACGCTCAGTGTTATTGATTTTCGCACTCAGCTCCTGCCCGACAAACTCACCTTACC
GCTGCTCTGGCTTGGCTTGGTATTTAATGCGCAGTATGGATTAATTGATTTACATGATGCGGTTTACGGCGCGGTAGCGG
GCTATGGGGTGCTGTGGTGTGTTTACTGGGGCGTCTGGTTAGTTTGTCACAAAGAGGGATTGGGCTACGGTGATTTCAAG
CTACTGGCCGCTGCAGGCGCATGGTGTGGCTGGCAAACGTTGCCAATGATACTGCTGATTGCCTCGCTGGGTGGCATTGG
TTACGCCATCGTTTCACAACTTCTGCAACGCCGGACTATAACCACTATCGCATTCGGCCCGTGGCTTGCGCTCGGCAGCA
TGATAAACCTGGGGTATCTGGCCTGGATCTCTTATTAA

Domains

Predicted by InterProScan.

Type IV leader peptidase family (Peptidase_A24)

(82-189)


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 Neisseria gonorrhoeae MS11

32.946

100

0.378

Multiple sequence alignment