Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   U3938_RS16700 Genome accession   NZ_CP141196
Coordinates   3414282..3414749 (+) Length   155 a.a.
NCBI ID   WP_000340171.1    Uniprot ID   -
Organism   Escherichia coli strain 673     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 3409282..3419749
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  U3938_RS16655 (U3938_16655) rplP 3409392..3409802 (-) 411 WP_000941212.1 50S ribosomal protein L16 -
  U3938_RS16660 (U3938_16660) rpsC 3409815..3410516 (-) 702 WP_000529945.1 30S ribosomal protein S3 -
  U3938_RS16665 (U3938_16665) rplV 3410534..3410866 (-) 333 WP_000447529.1 50S ribosomal protein L22 -
  U3938_RS16670 (U3938_16670) rpsS 3410881..3411159 (-) 279 WP_001138117.1 30S ribosomal protein S19 -
  U3938_RS16675 (U3938_16675) rplB 3411176..3411997 (-) 822 WP_000301864.1 50S ribosomal protein L2 -
  U3938_RS16680 (U3938_16680) rplW 3412015..3412317 (-) 303 WP_000617544.1 50S ribosomal protein L23 -
  U3938_RS16685 (U3938_16685) rplD 3412314..3412919 (-) 606 WP_000424395.1 50S ribosomal protein L4 -
  U3938_RS16690 (U3938_16690) rplC 3412930..3413559 (-) 630 WP_000579833.1 50S ribosomal protein L3 -
  U3938_RS16695 (U3938_16695) rpsJ 3413592..3413903 (-) 312 WP_001181004.1 30S ribosomal protein S10 -
  U3938_RS16700 (U3938_16700) pilD 3414282..3414749 (+) 468 WP_000340171.1 prepilin peptidase Machinery gene
  U3938_RS16705 (U3938_16705) bfr 3414746..3415222 (-) 477 WP_000675515.1 bacterioferritin -
  U3938_RS16710 (U3938_16710) bfd 3415295..3415489 (-) 195 WP_000289090.1 bacterioferritin-associated ferredoxin -
  U3938_RS16715 (U3938_16715) tuf 3415672..3416856 (-) 1185 WP_000031783.1 elongation factor Tu -
  U3938_RS16720 (U3938_16720) fusA 3416927..3419041 (-) 2115 WP_000124700.1 elongation factor G -
  U3938_RS16725 (U3938_16725) rpsG 3419138..3419608 (-) 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=836409 U3938_RS16700 WP_000340171.1 3414282..3414749(+) (pilD) [Escherichia coli strain 673]
MDATLPFLILYACLSVLLFLWDAKHGLLPDRFTCPLLWSGLLFSQVCNPDGLADALWGAIIGYGTFAVIYWGYRILRHKE
GLGYGDVKFLAALGAWHTWTFLPRLVFLAASFACGAVVVGLLMRGKESLKNPLPFGPFLAAAGFVVGWDSLLAGR

Nucleotide


Download         Length: 468 bp        

>NTDB_id=836409 U3938_RS16700 WP_000340171.1 3414282..3414749(+) (pilD) [Escherichia coli strain 673]
ATGGACGCTACCCTTCCCTTTCTGATTTTGTACGCTTGTTTATCTGTCCTACTTTTTTTATGGGATGCAAAGCATGGCTT
GTTACCTGACAGATTTACCTGCCCGTTACTCTGGTCAGGTCTTTTGTTCTCTCAGGTTTGTAATCCTGACGGTTTAGCCG
ATGCGTTATGGGGGGCGATTATTGGTTACGGCACATTCGCTGTCATTTACTGGGGGTATCGCATACTGCGTCATAAAGAA
GGATTAGGCTATGGTGATGTGAAGTTTCTCGCCGCCCTTGGTGCCTGGCATACCTGGACCTTCTTGCCACGACTGGTTTT
CCTTGCTGCCTCATTCGCTTGCGGAGCCGTAGTTGTTGGTCTGCTCATGAGAGGAAAAGAGTCATTAAAAAACCCGCTGC
CGTTTGGGCCATTTCTGGCGGCTGCGGGTTTCGTTGTAGGTTGGGATAGTTTGCTGGCAGGCCGTTAA

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