Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   V6S40_RS11935 Genome accession   NZ_CP145657
Coordinates   2398864..2399331 (+) Length   155 a.a.
NCBI ID   WP_000340171.1    Uniprot ID   -
Organism   Escherichia coli strain S1-IND-01-A     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 2393864..2404331
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  V6S40_RS11890 (V6S40_11895) rplP 2393974..2394384 (-) 411 WP_000941212.1 50S ribosomal protein L16 -
  V6S40_RS11895 (V6S40_11900) rpsC 2394397..2395098 (-) 702 WP_000529945.1 30S ribosomal protein S3 -
  V6S40_RS11900 (V6S40_11905) rplV 2395116..2395448 (-) 333 WP_000447529.1 50S ribosomal protein L22 -
  V6S40_RS11905 (V6S40_11910) rpsS 2395463..2395741 (-) 279 WP_001138117.1 30S ribosomal protein S19 -
  V6S40_RS11910 (V6S40_11915) rplB 2395758..2396579 (-) 822 WP_000301864.1 50S ribosomal protein L2 -
  V6S40_RS11915 (V6S40_11920) rplW 2396597..2396899 (-) 303 WP_000617544.1 50S ribosomal protein L23 -
  V6S40_RS11920 (V6S40_11925) rplD 2396896..2397501 (-) 606 WP_000424395.1 50S ribosomal protein L4 -
  V6S40_RS11925 (V6S40_11930) rplC 2397512..2398141 (-) 630 WP_000579833.1 50S ribosomal protein L3 -
  V6S40_RS11930 (V6S40_11935) rpsJ 2398174..2398485 (-) 312 WP_001181004.1 30S ribosomal protein S10 -
  V6S40_RS11935 (V6S40_11940) pilD 2398864..2399331 (+) 468 WP_000340171.1 A24 family peptidase Machinery gene
  V6S40_RS11940 (V6S40_11945) bfr 2399328..2399804 (-) 477 WP_000675515.1 bacterioferritin -
  V6S40_RS11945 (V6S40_11950) bfd 2399877..2400071 (-) 195 WP_000289090.1 bacterioferritin-associated ferredoxin -
  V6S40_RS11950 (V6S40_11955) tuf 2400254..2401438 (-) 1185 WP_000031783.1 elongation factor Tu -
  V6S40_RS11955 (V6S40_11960) fusA 2401509..2403623 (-) 2115 WP_000124700.1 elongation factor G -
  V6S40_RS11960 (V6S40_11965) rpsG 2403720..2404190 (-) 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=851692 V6S40_RS11935 WP_000340171.1 2398864..2399331(+) (pilD) [Escherichia coli strain S1-IND-01-A]
MDATLPFLILYACLSVLLFLWDAKHGLLPDRFTCPLLWSGLLFSQVCNPDGLADALWGAIIGYGTFAVIYWGYRILRHKE
GLGYGDVKFLAALGAWHTWTFLPRLVFLAASFACGAVVVGLLMRGKESLKNPLPFGPFLAAAGFVVGWDSLLAGR

Nucleotide


Download         Length: 468 bp        

>NTDB_id=851692 V6S40_RS11935 WP_000340171.1 2398864..2399331(+) (pilD) [Escherichia coli strain S1-IND-01-A]
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