Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   EcoO8H8_RS16925 Genome accession   NZ_AP019856
Coordinates   3533752..3534219 (+) Length   155 a.a.
NCBI ID   WP_000340171.1    Uniprot ID   -
Organism   Escherichia coli O8:H8 strain 16F5M1D1     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 3528752..3539219
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  EcoO8H8_RS16880 (Eco16F5M1D1_3355) rplP 3528862..3529272 (-) 411 WP_000941212.1 50S ribosomal protein L16 -
  EcoO8H8_RS16885 (Eco16F5M1D1_3356) rpsC 3529285..3529986 (-) 702 WP_000529945.1 30S ribosomal protein S3 -
  EcoO8H8_RS16890 (Eco16F5M1D1_3357) rplV 3530004..3530336 (-) 333 WP_000447529.1 50S ribosomal protein L22 -
  EcoO8H8_RS16895 (Eco16F5M1D1_3358) rpsS 3530351..3530629 (-) 279 WP_001138117.1 30S ribosomal protein S19 -
  EcoO8H8_RS16900 (Eco16F5M1D1_3359) rplB 3530646..3531467 (-) 822 WP_000301864.1 50S ribosomal protein L2 -
  EcoO8H8_RS16905 (Eco16F5M1D1_3360) rplW 3531485..3531787 (-) 303 WP_000617544.1 50S ribosomal protein L23 -
  EcoO8H8_RS16910 (Eco16F5M1D1_3361) rplD 3531784..3532389 (-) 606 WP_000424395.1 50S ribosomal protein L4 -
  EcoO8H8_RS16915 (Eco16F5M1D1_3362) rplC 3532400..3533029 (-) 630 WP_000579833.1 50S ribosomal protein L3 -
  EcoO8H8_RS16920 (Eco16F5M1D1_3363) rpsJ 3533062..3533373 (-) 312 WP_001181004.1 30S ribosomal protein S10 -
  EcoO8H8_RS16925 (Eco16F5M1D1_3364) pilD 3533752..3534219 (+) 468 WP_000340171.1 A24 family peptidase Machinery gene
  EcoO8H8_RS16930 (Eco16F5M1D1_3365) bfr 3534216..3534692 (-) 477 WP_000675515.1 bacterioferritin -
  EcoO8H8_RS16935 (Eco16F5M1D1_3366) bfd 3534765..3534959 (-) 195 WP_000289090.1 bacterioferritin-associated ferredoxin -
  EcoO8H8_RS16940 (Eco16F5M1D1_3367) tuf 3535142..3536326 (-) 1185 WP_000031783.1 elongation factor Tu -
  EcoO8H8_RS16945 (Eco16F5M1D1_3368) fusA 3536397..3538511 (-) 2115 WP_000124700.1 elongation factor G -
  EcoO8H8_RS16950 (Eco16F5M1D1_3369) rpsG 3538608..3539078 (-) 471 WP_001138043.1 30S ribosomal protein S7 -

Sequence

Protein


Download         Length: 155 a.a.        Molecular weight: 16938.08 Da        Isoelectric Point: 8.1296

>NTDB_id=63137 EcoO8H8_RS16925 WP_000340171.1 3533752..3534219(+) (pilD) [Escherichia coli O8:H8 strain 16F5M1D1]
MDATLPFLILYACLSVLLFLWDAKHGLLPDRFTCPLLWSGLLFSQVCNPDGLADALWGAIIGYGTFAVIYWGYRILRHKE
GLGYGDVKFLAALGAWHTWTFLPRLVFLAASFACGAVVVGLLMRGKESLKNPLPFGPFLAAAGFVVGWDSLLAGR

Nucleotide


Download         Length: 468 bp        

>NTDB_id=63137 EcoO8H8_RS16925 WP_000340171.1 3533752..3534219(+) (pilD) [Escherichia coli O8:H8 strain 16F5M1D1]
ATGGACGCTACCCTTCCCTTTCTGATTTTGTACGCTTGTTTATCTGTCCTACTTTTTTTATGGGATGCAAAGCATGGCTT
GTTACCTGACAGATTTACCTGCCCGTTACTCTGGTCAGGTCTTTTGTTCTCTCAGGTTTGTAATCCTGACGGTTTAGCCG
ATGCGTTATGGGGGGCGATTATTGGTTACGGCACATTCGCTGTCATTTACTGGGGGTATCGCATACTGCGTCATAAAGAA
GGATTAGGCTATGGTGATGTGAAGTTTCTCGCCGCCCTTGGTGCCTGGCATACCTGGACCTTCTTGCCACGACTGGTTTT
CCTTGCTGCCTCATTCGCTTGCGGAGCCGTAGTTGTTGGTCTGCTCATGAGAGGAAAAGAGTCATTAAAAAACCCGCTGC
CGTTTGGGCCATTTCTGGCGGCTGCGGGTTTCGTTGTAGGTTGGGATAGTTTGCTAGCAGGCCGTTAA

Domains

Predicted by InterProScan.

Type IV leader peptidase family (Peptidase_A24)

(10-116)


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

44.8

80.645

0.361
  pilD Neisseria gonorrhoeae MS11

38.095

94.839

0.361

Multiple sequence alignment