Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   VYI54_RS13250 Genome accession   NZ_CP142939
Coordinates   2667667..2668344 (+) Length   225 a.a.
NCBI ID   WP_000178161.1    Uniprot ID   -
Organism   Escherichia coli strain B20127     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 2662667..2673344
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  VYI54_RS13215 (VYI54_13215) gspG 2663147..2663584 (+) 438 WP_001202874.1 type II secretion system major pseudopilin GspG -
  VYI54_RS13220 (VYI54_13220) gspH 2663592..2664101 (+) 510 WP_001076046.1 type II secretion system minor pseudopilin GspH -
  VYI54_RS13225 (VYI54_13225) gspI 2664098..2664475 (+) 378 WP_001041743.1 type II secretion system minor pseudopilin GspI -
  VYI54_RS13230 (VYI54_13230) gspJ 2664468..2665055 (+) 588 WP_000610634.1 type II secretion system minor pseudopilin GspJ -
  VYI54_RS13235 (VYI54_13235) gspK 2665048..2666031 (+) 984 WP_001058522.1 type II secretion system minor pseudopilin GspK -
  VYI54_RS13240 (VYI54_13240) gspL 2666046..2667209 (+) 1164 WP_001115238.1 type II secretion system protein GspL -
  VYI54_RS13245 (VYI54_13245) gspM 2667206..2667667 (+) 462 WP_001295161.1 type II secretion system protein GspM -
  VYI54_RS13250 (VYI54_13250) pilD 2667667..2668344 (+) 678 WP_000178161.1 prepilin peptidase GspO Machinery gene
  VYI54_RS13255 (VYI54_13255) bfr 2668373..2668849 (-) 477 WP_000675504.1 bacterioferritin -
  VYI54_RS13260 (VYI54_13260) bfd 2668921..2669115 (-) 195 WP_000289085.1 bacterioferritin-associated ferredoxin -
  VYI54_RS13265 (VYI54_13265) chiA 2669284..2671977 (-) 2694 WP_000773156.1 bifunctional chitinase/lysozyme -

Sequence

Protein


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

>NTDB_id=842817 VYI54_RS13250 WP_000178161.1 2667667..2668344(+) (pilD) [Escherichia coli strain B20127]
MTMLLPLFILVGFIAGYFVNAIAYHLSPLEDKTALTFRQVLVHFRQKKYAWHDTVPLILCVAAAIACALAPFTPIVTGAL
FLYFCFVLTLSVIDFRTQLLPDKLTLPLLWLGLVFNAQYGLIDLHDAVYGAVAGYGVLWCVYWGVWLVCHKEGLGYGDFK
LLAAAGAWCGWQTLPMILLIASLGGIGYAIVSQLLQRRTITTIAFGPWLALGSMINLGYLAWISY

Nucleotide


Download         Length: 678 bp        

>NTDB_id=842817 VYI54_RS13250 WP_000178161.1 2667667..2668344(+) (pilD) [Escherichia coli strain B20127]
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