NOTICE:
- MODE:
1. Ligand file should be uploaded if the mode is Ligand Mode.
- For Receptor File:
1. Both Peptides and Nucleic Acids are avaliable for Cavity Server.
2. ONLY PDB format is supported(example).
3. The protein name should not contain @ ? + $ % * & ! ^, Otherwise it may lead to a mistake.
- For Ligand File:
1. ONLY MOL2 formate is supported. Here we suggest users using Openbabel to convert.
- For Parameter Sets:
1. SEPARATE_MIN_DEPTH: Default minimal depth of binding-site. Linkage between sub-cavity that do not reach this critical will be cut.
2. MAX_ABSTRACT_LIMIT: Default abstract surface area. Increase this value if the real binding site is much larger than the detection result, and vice-versa.
3. SEPARATE_MAX_LIMIT: Default surface area. Increase this value if the real binding site is much larger than the detection result, and vice-versa.
4. MIN_ABSTRACT_DEPTH: Default abstract depth. Increase this value if the real binding site is much larger than the detection result, and vice-versa.
5. RULER_1: Limt the minimum volume.
6. OUTPUT_RANK: Limit the minimum score.
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