Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   DHB4_RS16865 Genome accession   NZ_CP014270
Coordinates   3369949..3370626 (+) Length   225 a.a.
NCBI ID   WP_000178154.1    Uniprot ID   P25960
Organism   Escherichia coli K-12 strain K-12 DHB4     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 3364949..3375626
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  DHB4_RS16830 (DHB4_16860) gspG 3365429..3365866 (+) 438 WP_001202874.1 type II secretion system major pseudopilin GspG -
  DHB4_RS16835 (DHB4_16865) gspH 3365874..3366383 (+) 510 WP_001076046.1 type II secretion system minor pseudopilin GspH -
  DHB4_RS16840 (DHB4_16870) gspI 3366380..3366757 (+) 378 WP_001041743.1 type II secretion system minor pseudopilin GspI -
  DHB4_RS16845 (DHB4_16875) gspJ 3366750..3367337 (+) 588 WP_000610634.1 type II secretion system minor pseudopilin GspJ -
  DHB4_RS16850 (DHB4_16880) gspK 3367330..3368313 (+) 984 WP_001058522.1 type II secretion system minor pseudopilin GspK -
  DHB4_RS16855 (DHB4_16885) gspL 3368328..3369491 (+) 1164 WP_001115238.1 type II secretion system protein GspL -
  DHB4_RS16860 (DHB4_16890) gspM 3369488..3369949 (+) 462 WP_001295161.1 type II secretion system protein GspM -
  DHB4_RS16865 (DHB4_16895) pilD 3369949..3370626 (+) 678 WP_000178154.1 prepilin peptidase GspO Machinery gene
  DHB4_RS16870 (DHB4_16900) bfr 3370655..3371131 (-) 477 WP_000675504.1 bacterioferritin -
  DHB4_RS16875 (DHB4_16905) bfd 3371203..3371397 (-) 195 WP_000289085.1 bacterioferritin-associated ferredoxin -
  DHB4_RS16880 (DHB4_16910) chiA 3371566..3374259 (-) 2694 Protein_3242 bifunctional chitinase/lysozyme -

Sequence

Protein


Download         Length: 225 a.a.        Molecular weight: 24956.82 Da        Isoelectric Point: 7.6353

>NTDB_id=145194 DHB4_RS16865 WP_000178154.1 3369949..3370626(+) (pilD) [Escherichia coli K-12 strain K-12 DHB4]
MTMLLPLFILVGFIADYFVNAIAYHLSPLEDKTALTFRQVLVHFRQKKYAWHDTVPLILCVAAAIACALAPFTPIVTGAL
FLYFCFVLTLSVIDFRTQLLPDKLTLPLLWLGLVFNAQYGLIDLHDAVYGAVAGYGVLWCVYWGVWLVCHKEGLGYGDFK
LLAAAGAWCGWQTLPMILLIASLGGIGYAIVSQLLQRRTITTIAFGPWLALGSMINLGYLAWISY

Nucleotide


Download         Length: 678 bp        

>NTDB_id=145194 DHB4_RS16865 WP_000178154.1 3369949..3370626(+) (pilD) [Escherichia coli K-12 strain K-12 DHB4]
ATGACAATGCTACTGCCGCTCTTCATTCTGGTTGGTTTTATTGCAGATTATTTTGTTAATGCCATCGCCTATCACCTCTC
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
  AlphaFold DB P25960

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