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protenix-constraint

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protenix-constraint
File size: 2,140 Bytes
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{
  "architecture": "protenix_constraint",
  "atom_feature_size": 385,
  "confidence": {
    "distance_bin_end": 52.0,
    "distance_bin_start": 3.25,
    "distance_bin_step": 1.25,
    "expansion": 4,
    "max_atoms_per_token": 24,
    "num_blocks": 4,
    "num_pae_bins": 64,
    "num_pair_attention_heads": 16,
    "num_pde_bins": 64,
    "num_plddt_bins": 50,
    "num_resolved_bins": 2,
    "num_triangle_attention_heads": 4,
    "pairformer_dropout": 0.0,
    "single_max_abs": 512.0,
    "triangle_attention_head_size": 32,
    "triangle_multiplication_hidden_size": 128
  },
  "constraints": true,
  "denoiser": {
    "atom_hidden_size": 128,
    "atom_pair_hidden_size": 16,
    "num_atom_decoder_attention_heads": 4,
    "num_atom_decoder_blocks": 3,
    "num_atom_encoder_attention_heads": 4,
    "num_atom_encoder_blocks": 3,
    "num_key_atoms": 128,
    "num_query_atoms": 32,
    "num_token_encoder_attention_heads": 16,
    "num_token_encoder_blocks": 24,
    "sigma_data": 16.0,
    "token_hidden_size": 768
  },
  "distogram": {
    "num_bins": 64
  },
  "esm": null,
  "num_recycles": 10,
  "pair_size": 128,
  "relative_position_size": 139,
  "sampler": {
    "churn_rate": 0.8,
    "max_noise_level": 160.0,
    "min_churn_noise_level": 1.0,
    "min_noise_level": 0.0004,
    "noise_scale": 1.003,
    "num_sampling_steps": 200,
    "rho": 7.0,
    "solver": "euler",
    "step_scale": 1.5
  },
  "single_size": 384,
  "template": null,
  "trunk": {
    "msa_attention_head_size": null,
    "msa_dropout": 0.15,
    "msa_expansion": 4,
    "msa_outer_product_hidden_size": 32,
    "msa_size": 64,
    "msa_triangle_attention_head_size": 32,
    "msa_triangle_multiplication_hidden_size": 128,
    "num_msa_attention_heads": 8,
    "num_msa_stages": 4,
    "num_msa_triangle_attention_heads": 4,
    "num_pair_attention_heads": 16,
    "num_pairformer_blocks": 48,
    "num_pairformer_triangle_attention_heads": 4,
    "pair_dropout": 0.25,
    "pairformer_dropout": 0.25,
    "pairformer_expansion": 4,
    "pairformer_triangle_attention_head_size": 32,
    "pairformer_triangle_multiplication_hidden_size": 128
  }
}