Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   VYI62_RS13990 Genome accession   NZ_CP142925
Coordinates   2812270..2812737 (+) Length   155 a.a.
NCBI ID   WP_000340159.1    Uniprot ID   -
Organism   Escherichia coli strain B20105     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 2807270..2817737
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  VYI62_RS13945 (VYI62_13955) rplP 2807380..2807790 (-) 411 WP_000941212.1 50S ribosomal protein L16 -
  VYI62_RS13950 (VYI62_13960) rpsC 2807803..2808504 (-) 702 WP_000529945.1 30S ribosomal protein S3 -
  VYI62_RS13955 (VYI62_13965) rplV 2808522..2808854 (-) 333 WP_000447529.1 50S ribosomal protein L22 -
  VYI62_RS13960 (VYI62_13970) rpsS 2808869..2809147 (-) 279 WP_001138117.1 30S ribosomal protein S19 -
  VYI62_RS13965 (VYI62_13975) rplB 2809164..2809985 (-) 822 WP_000301864.1 50S ribosomal protein L2 -
  VYI62_RS13970 (VYI62_13980) rplW 2810003..2810305 (-) 303 WP_000617544.1 50S ribosomal protein L23 -
  VYI62_RS13975 (VYI62_13985) rplD 2810302..2810907 (-) 606 WP_000424395.1 50S ribosomal protein L4 -
  VYI62_RS13980 (VYI62_13990) rplC 2810918..2811547 (-) 630 WP_000579833.1 50S ribosomal protein L3 -
  VYI62_RS13985 (VYI62_13995) rpsJ 2811580..2811891 (-) 312 WP_001181004.1 30S ribosomal protein S10 -
  VYI62_RS13990 (VYI62_14000) pilD 2812270..2812737 (+) 468 WP_000340159.1 A24 family peptidase Machinery gene
  VYI62_RS13995 (VYI62_14005) bfr 2812734..2813210 (-) 477 WP_000675515.1 bacterioferritin -
  VYI62_RS14000 (VYI62_14010) bfd 2813283..2813477 (-) 195 WP_000289090.1 bacterioferritin-associated ferredoxin -
  VYI62_RS14005 (VYI62_14015) tuf 2813660..2814844 (-) 1185 WP_000031783.1 elongation factor Tu -
  VYI62_RS14010 (VYI62_14020) fusA 2814915..2817029 (-) 2115 WP_000124703.1 elongation factor G -
  VYI62_RS14015 (VYI62_14025) rpsG 2817126..2817596 (-) 471 WP_001138043.1 30S ribosomal protein S7 -

Sequence

Protein


Download         Length: 155 a.a.        Molecular weight: 17034.17 Da        Isoelectric Point: 8.1255

>NTDB_id=842643 VYI62_RS13990 WP_000340159.1 2812270..2812737(+) (pilD) [Escherichia coli strain B20105]
MDATLPFLILYACLSALLFFWDAKHGLLPDRFTCPLLWSGLLFYQVCNPDGLADALWGAIIGYGTFAVIYWGYRILRHKE
GLGYGDVKFLAALGAWHTWTFLPRLVFLAASFACGAVVIGLLMRGKESLKNPLPFGPFLAAAGFVVGWDSLLAGR

Nucleotide


Download         Length: 468 bp        

>NTDB_id=842643 VYI62_RS13990 WP_000340159.1 2812270..2812737(+) (pilD) [Escherichia coli strain B20105]
ATGGACGCTACCCTTCCCTTTCTGATTTTGTACGCTTGTTTATCAGCCCTACTTTTTTTCTGGGATGCAAAGCATGGCTT
GTTACCTGACAGATTTACGTGCCCGTTACTCTGGTCAGGTCTTTTGTTCTATCAAGTTTGTAATCCTGACGGTTTAGCCG
ATGCGTTATGGGGGGCGATTATTGGTTACGGCACATTCGCTGTCATTTACTGGGGGTATCGCATACTGCGTCATAAAGAA
GGATTAGGCTATGGTGATGTGAAGTTTCTCGCCGCCCTTGGTGCCTGGCATACATGGACCTTCTTGCCACGACTGGTTTT
CCTTGCTGCCTCATTCGCTTGCGGAGCCGTAGTTATTGGTCTGCTCATGAGAGGAAAAGAGTCATTAAAAAACCCGCTGC
CGTTTGGGCCATTTCTGGCGGCTGCGGGTTTCGTTGTAGGCTGGGATAGTTTGCTGGCAGGCCGTTAA

Domains

Predicted by InterProScan.

Type IV leader peptidase family (Peptidase_A24)

(11-117)


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

44.882

81.935

0.368