Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   SKB21_RS01935 Genome accession   NZ_CP139182
Coordinates   419729..420406 (-) Length   225 a.a.
NCBI ID   WP_000178161.1    Uniprot ID   -
Organism   Escherichia coli strain JX21CE35     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 414729..425406
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  SKB21_RS01920 (SKB21_01920) chiA 416096..418789 (+) 2694 WP_000773156.1 bifunctional chitinase/lysozyme -
  SKB21_RS01925 (SKB21_01925) bfd 418958..419152 (+) 195 WP_000289085.1 bacterioferritin-associated ferredoxin -
  SKB21_RS01930 (SKB21_01930) bfr 419224..419700 (+) 477 WP_000675504.1 bacterioferritin -
  SKB21_RS01935 (SKB21_01935) pilD 419729..420406 (-) 678 WP_000178161.1 prepilin peptidase GspO Machinery gene
  SKB21_RS01940 (SKB21_01940) gspM 420406..420867 (-) 462 WP_001295161.1 type II secretion system protein GspM -
  SKB21_RS01945 (SKB21_01945) - 420864..421377 (-) 514 Protein_386 GspL/Epsl periplasmic domain-containing protein -
  SKB21_RS01950 (SKB21_01950) - 421414..422111 (+) 698 WP_094096600.1 IS1-like element IS1A family transposase -
  SKB21_RS01955 (SKB21_01955) gspL 422127..422804 (-) 678 Protein_388 type II secretion system protein GspL -
  SKB21_RS01960 (SKB21_01960) gspK 422819..423802 (-) 984 WP_001058522.1 type II secretion system minor pseudopilin GspK -
  SKB21_RS01965 (SKB21_01965) gspJ 423795..424382 (-) 588 WP_000610634.1 type II secretion system minor pseudopilin GspJ -
  SKB21_RS01970 (SKB21_01970) gspI 424375..424752 (-) 378 WP_001041743.1 type II secretion system minor pseudopilin GspI -
  SKB21_RS01975 (SKB21_01975) gspH 424749..425258 (-) 510 WP_338853268.1 type II secretion system minor pseudopilin GspH -

Sequence

Protein


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

>NTDB_id=829676 SKB21_RS01935 WP_000178161.1 419729..420406(-) (pilD) [Escherichia coli strain JX21CE35]
MTMLLPLFILVGFIAGYFVNAIAYHLSPLEDKTALTFRQVLVHFRQKKYAWHDTVPLILCVAAAIACALAPFTPIVTGAL
FLYFCFVLTLSVIDFRTQLLPDKLTLPLLWLGLVFNAQYGLIDLHDAVYGAVAGYGVLWCVYWGVWLVCHKEGLGYGDFK
LLAAAGAWCGWQTLPMILLIASLGGIGYAIVSQLLQRRTITTIAFGPWLALGSMINLGYLAWISY

Nucleotide


Download         Length: 678 bp        

>NTDB_id=829676 SKB21_RS01935 WP_000178161.1 419729..420406(-) (pilD) [Escherichia coli strain JX21CE35]
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