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README.md 844 B

Modelling of phytoplasma effectors

Link to project in ModelArchive (incl. background on project itself)

Setup:

  • Using AlphaFold v2.2 for monomer predictions with fairly default settings
  • Conversion based only on PDB files without extra data
  • CSV file with links to accession codes in UniProt

Special features here:

  • Generic code added to find best sequence match in UniProt history and report mismatches
  • Sequences with remaining mismatches (here due to experimental assays) labelled in entity name
  • One obsolete entry (SAP11_MBS linked to A0A1B3JKP4 in UniProt or UPI00083DE1DE in UniParc)
  • pLDDT extracted from b-factors (simplest setup since no other QA scores anyway)

Content:

  • translate2modelcif.py : script to do conversion
  • input_data: PDB files and CSV used for conversion