Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   AYP36_RS12480 Genome accession   NZ_CP034808
Coordinates   2623195..2623662 (-) Length   155 a.a.
NCBI ID   WP_000381746.1    Uniprot ID   Q8X892
Organism   Escherichia coli strain 08-3914     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 2618195..2628662
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  AYP36_RS12455 rpsG 2618336..2618806 (+) 471 WP_001138043.1 30S ribosomal protein S7 -
  AYP36_RS12460 fusA 2618903..2621017 (+) 2115 WP_000124700.1 elongation factor G -
  AYP36_RS12465 tuf 2621088..2622272 (+) 1185 WP_000031783.1 elongation factor Tu -
  AYP36_RS12470 bfd 2622455..2622649 (+) 195 WP_000289090.1 bacterioferritin-associated ferredoxin -
  AYP36_RS12475 bfr 2622722..2623198 (+) 477 WP_000675516.1 bacterioferritin -
  AYP36_RS12480 pilD 2623195..2623662 (-) 468 WP_000381746.1 A24 family peptidase Machinery gene
  AYP36_RS12490 rpsJ 2624041..2624352 (+) 312 WP_001181004.1 30S ribosomal protein S10 -
  AYP36_RS12495 rplC 2624385..2625014 (+) 630 WP_000579833.1 50S ribosomal protein L3 -
  AYP36_RS12500 rplD 2625025..2625630 (+) 606 WP_000424395.1 50S ribosomal protein L4 -
  AYP36_RS12505 rplW 2625627..2625929 (+) 303 WP_000617544.1 50S ribosomal protein L23 -
  AYP36_RS12510 rplB 2625947..2626768 (+) 822 WP_000301864.1 50S ribosomal protein L2 -
  AYP36_RS12515 rpsS 2626785..2627063 (+) 279 WP_001138117.1 30S ribosomal protein S19 -
  AYP36_RS12520 rplV 2627078..2627410 (+) 333 WP_000447529.1 50S ribosomal protein L22 -
  AYP36_RS12525 rpsC 2627428..2628129 (+) 702 WP_000529945.1 30S ribosomal protein S3 -
  AYP36_RS12530 rplP 2628142..2628552 (+) 411 WP_000941212.1 50S ribosomal protein L16 -

Sequence

Protein


Download         Length: 155 a.a.        Molecular weight: 17099.29 Da        Isoelectric Point: 8.1343

>NTDB_id=291401 AYP36_RS12480 WP_000381746.1 2623195..2623662(-) (pilD) [Escherichia coli strain 08-3914]
MDTTLPFLILYACLSALLFFWDAKHGLLPDRFTCPLLWSGLLFYQVCHPDGLADALWGAIIGYGTFAVIYWGYRILRHKE
GLGYGDVKFLAALGAWHSWAFLPRLVFLAASFACGAVVIGLLMRGKESLKNPLPFGPFLAAAGFVIGWDSLLIGR

Nucleotide


Download         Length: 468 bp        

>NTDB_id=291401 AYP36_RS12480 WP_000381746.1 2623195..2623662(-) (pilD) [Escherichia coli strain 08-3914]
ATGGACACTACCCTTCCCTTTCTAATTTTGTACGCTTGTTTATCAGCCCTACTTTTTTTCTGGGATGCAAAGCATGGCTT
GTTACCTGACAGATTTACGTGCCCGTTACTCTGGTCAGGTCTTTTGTTCTATCAAGTTTGTCATCCTGATGGTTTAGCCG
ATGCGTTATGGGGGGCAATTATTGGTTACGGCACATTCGCTGTCATTTACTGGGGGTATCGCATACTGCGCCATAAAGAA
GGATTAGGCTATGGTGATGTGAAGTTTCTCGCCGCCCTTGGCGCCTGGCATTCATGGGCCTTCTTACCACGACTGGTTTT
CCTTGCTGCCTCATTCGCTTGCGGAGCCGTAGTTATTGGTCTGCTCATGAGAGGAAAAGAATCATTAAAAAACCCGCTGC
CTTTTGGGCCATTTCTGGCGGCTGCGGGTTTCGTTATAGGCTGGGATAGTTTGCTGATAGGCCGTTAA

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
  AlphaFold DB Q8X892

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

43.478

89.032

0.387

Multiple sequence alignment