DDAP Database

Downloads

Updated in March 2019

  1. PKS with published pathways

    1. Basic information

      2. The names/IDs of the PKS are encoded as BGC_n, where n in a positive integer.

      1. basic information

    2. PKS sequences

      3. Download PKS sequences in:

      1. .csv format
      2. .fasta format
      3. .gbk format

    3. Docking domain sequences

      4. The docking domain names are encoded as "BGC_n_LINKER_k_HC" for Heads (C-terminal DD) and "BGC_n_LINKER_k_TN" for Tails (N-terminal DD), where BGC_n is the BGC ID (or the PKS ID), LINKER_k is the docking domain ID.

      Heads: 100 AA at the C-terminus of a PKS peptide.
      Tails: 50 AA at the N-terminus of a PKS peptide.

      Heads or Tails with the same n are in the same pathway.
      Heads and Tails with the same n and k are interacting DDs.
      Heads and Tails with the same n but different k are non-interacting DDs.
      For example, "BGC_2_LINKER_3_HC" interacts with "BGC_2_LINKER_3_TN" but not "BGC_2_LINKER_1_TN".

      The "basic information" file provides a mapping scheme from the above IDs to the PKS gene names.

      1. basic information
      2. Head (C-terminal DD) sequences in .fasta format
      3. Tail (N-terminal DD) sequences in .fasta format

  2. PKS with predicted pathways

    3. MIBiG v.1.4 has 252 type I modular PKS records. After excluding PKSs with published pathways, PKSs that do no have availabel sequences and PKSs with only 1 PKS gene, we used antiSMASH + DDAP to predict pathways of the remaining 80 PKSs. A maximum of 50,000 putative pathways are kept for each PKS.

    1. All pathway prediction results