{
  "schema_version": "2.0",
  "record_type": "dataset",
  "tier": "verified",
  "slug": "alphafold-db",
  "name": "AlphaFold Protein Structure Database",
  "summary": {
    "en": "License: permissive (CC-BY-4.0); Mdexa hosting: link-only. first-hand data-scope statement(s) allow commercial use and redistribution Risk flag(s): derived, model-generated.",
    "zh": "许可证声明：宽松（CC-BY-4.0）；本站处理：只链接原出处。针对数据的声明允许商用和再分发。来源风险标记：derived、model-generated。"
  },
  "systems": [
    "modern-medicine"
  ],
  "domains": [
    "genomics-omics"
  ],
  "content_types": [
    "database"
  ],
  "content_description": {
    "en": "Open-access database of over 260 million AI-predicted protein structure entries developed by Google DeepMind and EMBL-EBI, with broad coverage of UniProt proteomes.",
    "zh": "由Google DeepMind与EMBL-EBI共同开发的开放获取蛋白质结构预测数据库，收录逾2.6亿条预测，广泛覆盖UniProt蛋白序列。"
  },
  "languages": [
    "en"
  ],
  "modalities": [
    "text"
  ],
  "size": {
    "raw": "over 260 million protein structure predictions",
    "measures": []
  },
  "publisher": "Google DeepMind and EMBL-EBI",
  "year": {
    "value": null,
    "raw": null
  },
  "license": {
    "legacy_status": "pending",
    "spdx": "CC-BY-4.0",
    "commercial_use": "yes",
    "derivatives": "yes",
    "redistribution": "yes",
    "rationale": {
      "en": "first-hand data-scope statement(s) allow commercial use and redistribution",
      "zh": "针对数据的声明允许商用和再分发"
    },
    "evidence": [
      {
        "location": "dataset-page",
        "location_detail": {
          "en": "Statement found in snapshot s01 (page)",
          "zh": "在快照 s01（page）中找到的声明"
        },
        "excerpt": "Data is available for academic and commercial use, under a CC-BY-4.0 licence.",
        "spdx": "CC-BY-4.0",
        "url": "https://alphafold.ebi.ac.uk/",
        "verified_on": "2026-11-12",
        "snapshot_id": "s01",
        "observed": "page",
        "captured_by": "pipeline"
      },
      {
        "location": "dataset-page",
        "location_detail": {
          "en": "Statement found in snapshot s01 (page)",
          "zh": "在快照 s01（page）中找到的声明"
        },
        "excerpt": "EMBL-EBI expects attribution (e.g., in publications, services, or products) for any of its online services, databases, or software in accordance with good scientific practice.",
        "url": "https://alphafold.ebi.ac.uk/",
        "verified_on": "2026-11-12",
        "snapshot_id": "s01",
        "observed": "page",
        "captured_by": "pipeline"
      },
      {
        "location": "dataset-page",
        "location_detail": {
          "en": "Statement found in snapshot s01 (page)",
          "zh": "在快照 s01（page）中找到的声明"
        },
        "excerpt": "AlphaFold Data Copyright (2022) DeepMind Technologies Limited.",
        "url": "https://alphafold.ebi.ac.uk/",
        "verified_on": "2026-11-12",
        "snapshot_id": "s01",
        "observed": "page",
        "captured_by": "pipeline"
      },
      {
        "location": "dataset-page",
        "location_detail": {
          "en": "Statement found in snapshot s01 (page)",
          "zh": "在快照 s01（page）中找到的声明"
        },
        "excerpt": "Kinetoplastid data copyright (2025) Wheeler Lab",
        "url": "https://alphafold.ebi.ac.uk/",
        "verified_on": "2026-11-12",
        "snapshot_id": "s01",
        "observed": "page",
        "captured_by": "pipeline"
      },
      {
        "location": "dataset-page",
        "location_detail": {
          "en": "Statement found in snapshot s01 (page)",
          "zh": "在快照 s01（page）中找到的声明"
        },
        "excerpt": "AllTheBacteria data copyright (2025) AllTheBacteria Consortium",
        "url": "https://alphafold.ebi.ac.uk/",
        "verified_on": "2026-11-12",
        "snapshot_id": "s01",
        "observed": "page",
        "captured_by": "pipeline"
      },
      {
        "location": "dataset-page",
        "location_detail": {
          "en": "Statement found in snapshot s01 (page)",
          "zh": "在快照 s01（page）中找到的声明"
        },
        "excerpt": "A BFVD Data Copyright (2025) The BFVD Development Team",
        "url": "https://alphafold.ebi.ac.uk/",
        "verified_on": "2026-11-12",
        "snapshot_id": "s01",
        "observed": "page",
        "captured_by": "pipeline"
      },
      {
        "location": "dataset-page",
        "location_detail": {
          "en": "Statement found in snapshot s01 (page)",
          "zh": "在快照 s01（page）中找到的声明"
        },
        "excerpt": "AlphaMissense Copyright (2023) DeepMind Technologies Limited.",
        "url": "https://alphafold.ebi.ac.uk/",
        "verified_on": "2026-11-12",
        "snapshot_id": "s01",
        "observed": "page",
        "captured_by": "pipeline"
      },
      {
        "location": "website-footer",
        "location_detail": {
          "en": "Statement found in snapshot s01 (page)",
          "zh": "在快照 s01（page）中找到的声明"
        },
        "excerpt": "Copyright © EMBL 2023 EMBL-EBI is part of the European Molecular Biology Laboratory Terms of use",
        "url": "https://alphafold.ebi.ac.uk/",
        "verified_on": "2026-11-12",
        "snapshot_id": "s01",
        "observed": "page",
        "captured_by": "pipeline"
      }
    ],
    "license_conditions": [
      "attribution"
    ],
    "notes": {
      "en": "risk flag(s) derived,model-generated: never eligible or hosted",
      "zh": "risk flag(s) derived,model-generated: never eligible or hosted"
    }
  },
  "license_status": "permissive",
  "hosting": "link-only",
  "hosting_reason": {
    "en": "License permissive: first-hand data-scope statement(s) allow commercial use and redistribution. Risk flag(s): derived, model-generated. Link only.",
    "zh": "许可证宽松：针对数据的声明允许商用和再分发。来源风险标记：derived、model-generated。只链接原出处。"
  },
  "signoff": null,
  "risk_flags": [
    "derived",
    "model-generated"
  ],
  "provenance": {
    "source_description": null,
    "upstream": [
      {
        "slug": null,
        "name": "UniProt",
        "relation": "derived-from"
      },
      {
        "slug": null,
        "name": "PDB",
        "relation": "derived-from"
      }
    ]
  },
  "known_issues": [],
  "preflight": {
    "status": "not-run"
  },
  "access": {
    "mdexa_download": null,
    "external_urls": [
      "https://alphafold.ebi.ac.uk/",
      "https://alphafold.ebi.ac.uk/faq"
    ],
    "notes": null
  },
  "citation": {
    "text": null,
    "references": []
  },
  "verification_level": "verified",
  "last_verified": "2026-11-14",
  "tags": [
    {
      "facet": "intended_use",
      "value": "retrieval-kb",
      "basis": "inferred",
      "inferred_from": "card-content-description",
      "excerpt": "AlphaFold DB provides open access to over 260 million protein structure predictions to accelerate scientific research.",
      "snapshot_id": "s01"
    },
    {
      "facet": "source_type",
      "value": "literature",
      "basis": "author-stated",
      "excerpt": "AlphaFold Database now integrates AI-derived residue-level annotations from the scientific literature",
      "snapshot_id": "s01"
    },
    {
      "facet": "annotation_depth",
      "value": "with-evidence",
      "basis": "author-stated",
      "excerpt": "ensuring that literature-derived residue annotations are supported by experimental evidence",
      "snapshot_id": "s01"
    }
  ],
  "changelog": [
    {
      "date": "2026-11-13",
      "change": {
        "en": "Added via the automated pipeline and passed all checks (gates, verbatim quotes, rule engine, two independent extractions).",
        "zh": "经自动流水线收录并通过全部校验（门禁、逐字引用、判定引擎、两轮独立抽取）。"
      }
    },
    {
      "date": "2026-11-13",
      "change": {
        "en": "Re-adjudicated under the current rules; all machine checks still pass.",
        "zh": "按当前规则重新判定；机器检查仍全部通过。"
      }
    },
    {
      "date": "2026-11-13",
      "change": {
        "en": "Re-adjudicated under the current rules; all machine checks still pass.",
        "zh": "按当前规则重新判定；机器检查仍全部通过。"
      }
    },
    {
      "date": "2026-11-14",
      "change": {
        "en": "Re-adjudicated under the current rules; all machine checks still pass.",
        "zh": "按当前规则重新判定；机器检查仍全部通过。"
      }
    },
    {
      "date": "2026-11-14",
      "change": {
        "en": "Re-adjudicated under the current rules; all machine checks still pass.",
        "zh": "按当前规则重新判定；机器检查仍全部通过。"
      }
    },
    {
      "date": "2026-11-14",
      "change": {
        "en": "Known defects, version notes and access statements from cited sources (papers, release notes, official pages) were added; each shows who said it, when, and what kind of source it is.",
        "zh": "补入来自所引来源（论文、发布说明、官方页面）的已知缺陷、版本说明与取用方式，每条标明出自谁、何时、来源类型。"
      }
    },
    {
      "date": "2026-11-14",
      "change": {
        "en": "Practical fields (scope, identifiers, access methods, versions, known defects) were added by the automated pipeline from stored page snapshots; every statement carries a verbatim quote.",
        "zh": "实用卡字段（内容范围、标识符、取用方式、版本、已知缺陷）由自动流水线根据已存快照添加，每条陈述带逐字引文。"
      }
    },
    {
      "date": "2026-11-14",
      "change": {
        "en": "Known defects, version notes and access statements from cited sources (papers, release notes, official pages) were added; each shows who said it, when, and what kind of source it is.",
        "zh": "补入来自所引来源（论文、发布说明、官方页面）的已知缺陷、版本说明与取用方式，每条标明出自谁、何时、来源类型。"
      }
    }
  ],
  "practical": {
    "content_scope": {
      "entities": [
        {
          "kind": "protein structure predictions",
          "count": null,
          "count_as_of": null,
          "statement": {
            "text": {
              "en": "The page states that AlphaFold DB provides open access to over 260 million protein structure predictions to accelerate scientific research.",
              "zh": "页面称 AlphaFold DB 提供超过 2.6 亿个蛋白质结构预测的开放访问，以加速科学研究。"
            },
            "evidence": [
              {
                "location": "dataset-page",
                "excerpt": "AlphaFold DB provides open access to over 260 million protein structure predictions to accelerate scientific research.",
                "url": "https://alphafold.ebi.ac.uk/",
                "snapshot_id": "s01",
                "char_start": 1204,
                "verified_on": "2026-11-12",
                "observed": "page",
                "captured_by": "pipeline"
              }
            ]
          }
        },
        {
          "kind": "protein structure predictions",
          "count": null,
          "count_as_of": null,
          "statement": {
            "text": {
              "en": "The page states that the latest database release contains over 200 million entries and provides broad coverage of UniProt, the standard repository of protein sequences and annotations.",
              "zh": "页面称最新数据库版本包含超过 2 亿个条目，并广泛覆盖 UniProt，即蛋白质序列和注释的标准库。"
            },
            "evidence": [
              {
                "location": "dataset-page",
                "excerpt": "The latest database release contains over 200 million entries, providing broad coverage of UniProt (the standard repository of protein sequences and annotations).",
                "url": "https://alphafold.ebi.ac.uk/",
                "snapshot_id": "s01",
                "char_start": 1703,
                "verified_on": "2026-11-12",
                "observed": "page",
                "captured_by": "pipeline"
              }
            ]
          }
        },
        {
          "kind": "protein structure predictions",
          "count": 241070489,
          "count_as_of": "2025-09-15",
          "statement": {
            "text": {
              "en": "The changelog entry dated 2025-09-15 states 241,070,489 structures.",
              "zh": "日期为 2025-09-15 的更新日志条目称有 241,070,489 个结构。"
            },
            "evidence": [
              {
                "location": "dataset-page",
                "excerpt": "241,070,489 structures",
                "url": "https://ftp.ebi.ac.uk/pub/databases/alphafold/CHANGELOG.txt",
                "snapshot_id": "s03",
                "char_start": 562,
                "verified_on": "2026-11-13",
                "observed": "page",
                "captured_by": "pipeline"
              }
            ]
          }
        }
      ],
      "coverage": [
        {
          "text": {
            "en": "The page states that individual downloads are provided for the human proteome and for the proteomes of 47 other key organisms important in research and global health.",
            "zh": "页面称提供人类蛋白质组以及另外 47 个在研究和全球健康方面重要的关键生物蛋白质组的单独下载。"
          },
          "evidence": [
            {
              "location": "dataset-page",
              "excerpt": "We provide individual downloads for the human proteome and for the proteomes of 47 other key organisms important in research and global health.",
              "url": "https://alphafold.ebi.ac.uk/",
              "snapshot_id": "s01",
              "char_start": 1866,
              "verified_on": "2026-11-12",
              "observed": "page",
              "captured_by": "pipeline"
            }
          ]
        }
      ]
    },
    "identifiers": {
      "schemes": [
        {
          "name": "AlphaFold DB identifier",
          "bioregistry_prefix": null,
          "applies_to": "protein structure predictions",
          "statement": {
            "text": {
              "en": "The README lists an AlphaFold DB identifier column with the example AF-A8H2R3-F1.",
              "zh": "README 列出一个 AlphaFold DB 标识符列，示例为 AF-A8H2R3-F1。"
            },
            "evidence": [
              {
                "location": "readme",
                "excerpt": "AlphaFold DB identifier, e.g. AF-A8H2R3-F1",
                "url": "https://ftp.ebi.ac.uk/pub/databases/alphafold/README.txt",
                "snapshot_id": "s04",
                "char_start": 1591,
                "verified_on": "2026-11-13",
                "observed": "page",
                "captured_by": "pipeline"
              }
            ]
          }
        }
      ],
      "crosswalks": [
        {
          "to": "UniProt",
          "to_slug": null,
          "statement": {
            "text": {
              "en": "The README's FASTA identifier row includes UA=UniprotAccession and UI=UniprotIdentifier fields.",
              "zh": "README 的 FASTA 标识符行包含 UA=UniprotAccession 和 UI=UniprotIdentifier 字段。"
            },
            "evidence": [
              {
                "location": "readme",
                "excerpt": ">AFDB:UniqueIdentifier ProteinName UA=UniprotAccession UI=UniprotIdentifier",
                "url": "https://ftp.ebi.ac.uk/pub/databases/alphafold/README.txt",
                "snapshot_id": "s04",
                "char_start": 2278,
                "verified_on": "2026-11-13",
                "observed": "page",
                "captured_by": "pipeline"
              }
            ]
          }
        }
      ],
      "mismatch_cases": [],
      "notes": [
        {
          "text": {
            "en": "Entries are identified as AF-<UniProt accession>-F<fragment number> (e.g. AF-Q5VSL9-F1), and each entry also carries a version number.",
            "zh": "条目标识形如 AF-<UniProt 登录号>-F<片段号>（如 AF-Q5VSL9-F1），并带有版本号。"
          },
          "evidence": [
            {
              "location": "dataset-page",
              "excerpt": ">AFDB:AF-Q5VSL9-F1 Striatin-interacting protein 1",
              "url": "https://ftp.ebi.ac.uk/pub/databases/alphafold/README.txt",
              "snapshot_id": "s04",
              "char_start": 2420,
              "verified_on": "2026-11-14",
              "observed": "page",
              "source_work": {
                "title": "AlphaFold DB FTP README.txt",
                "authors_or_org": "EMBL-EBI / Google DeepMind (AlphaFold DB)",
                "date": "2025-10-20",
                "date_as_written": "2025-10-20",
                "source_type": "official-page",
                "open_access": true,
                "doi_or_url": "https://ftp.ebi.ac.uk/pub/databases/alphafold/README.txt"
              }
            }
          ]
        },
        {
          "text": {
            "en": "A diffs file lists entries added, removed or changed in the current database version, with change type ADDED, REMOVED or CHANGED.",
            "zh": "diffs 文件列出当前版本中新增、移除或变更的条目，变更类型为 ADDED、REMOVED、CHANGED。"
          },
          "evidence": [
            {
              "location": "dataset-page",
              "excerpt": "This file lists entries that were added, removed, or changed in the current database version.",
              "url": "https://ftp.ebi.ac.uk/pub/databases/alphafold/README.txt",
              "snapshot_id": "s04",
              "char_start": null,
              "verified_on": "2026-11-14",
              "observed": "page",
              "source_work": {
                "title": "AlphaFold DB FTP README.txt",
                "authors_or_org": "EMBL-EBI / Google DeepMind (AlphaFold DB)",
                "date": "2025-10-20",
                "date_as_written": "2025-10-20",
                "source_type": "official-page",
                "open_access": true,
                "doi_or_url": "https://ftp.ebi.ac.uk/pub/databases/alphafold/README.txt"
              }
            }
          ]
        }
      ]
    },
    "access_methods": [
      {
        "method": "bulk-download",
        "url": "http://ftp.ebi.ac.uk/pub/databases/alphafold/",
        "formats": [
          "PDB",
          "mmCIF"
        ],
        "limits": [],
        "terms": {
          "same_as_card_license": true,
          "own_terms": null
        },
        "reachable": null
      },
      {
        "method": "web-ui-only",
        "url": "https://pmc.ncbi.nlm.nih.gov/articles/PMC10767828/",
        "formats": [],
        "limits": [],
        "terms": {
          "same_as_card_license": true,
          "own_terms": null
        },
        "statement": {
          "text": {
            "en": "Data are offered via FTP, a programmatic API and Google Cloud Public Datasets.",
            "zh": "数据可通过 FTP、程序化 API 与 Google Cloud 公共数据集获取。"
          },
          "evidence": [
            {
              "location": "peer-reviewed-paper",
              "excerpt": "We detail the data access mechanisms of AlphaFold DB, from direct file access via FTP to advanced queries using Google Cloud Public Datasets and the programmatic access endpoints of the database.",
              "url": "https://pmc.ncbi.nlm.nih.gov/articles/PMC10767828/",
              "snapshot_id": "s05",
              "char_start": 8938,
              "verified_on": "2026-11-14",
              "observed": "page",
              "source_work": {
                "title": "AlphaFold Protein Structure Database in 2024: providing structure coverage for over 214 million protein sequences",
                "authors_or_org": "Varadi M, Bertoni D, Magana P, et al. (Nucleic Acids Research)",
                "date": "2024-01-01",
                "date_as_written": "2024-01-01",
                "source_type": "peer-reviewed-paper",
                "open_access": true,
                "doi_or_url": "https://pmc.ncbi.nlm.nih.gov/articles/PMC10767828/"
              }
            }
          ]
        },
        "reachable": null
      }
    ],
    "versioning": {
      "latest": {
        "label": "2025-09-15",
        "released_on": "2025-09-15",
        "statement": {
          "text": {
            "en": "The latest dated entry in the changelog is 2025-09-15.",
            "zh": "更新日志中最新带日期的条目为 2025-09-15。"
          },
          "evidence": [
            {
              "location": "dataset-page",
              "excerpt": "## 2025-09-15",
              "url": "https://ftp.ebi.ac.uk/pub/databases/alphafold/CHANGELOG.txt",
              "snapshot_id": "s03",
              "char_start": 50,
              "verified_on": "2026-11-13",
              "observed": "page",
              "captured_by": "pipeline"
            }
          ]
        }
      },
      "update_cycle": {
        "cycle": "not-stated",
        "statement": null
      },
      "breaking_changes": [
        {
          "version": "2022-07-28",
          "date": "2022-07-28",
          "kind": "identifier",
          "statement": {
            "text": {
              "en": "The changelog states that the CIF _database_2.database_id value changed from AF to AlphaFoldDB.",
              "zh": "更新日志称 CIF 的 _database_2.database_id 值从 AF 改为 AlphaFoldDB。"
            },
            "evidence": [
              {
                "location": "dataset-page",
                "excerpt": "CIF: Updated `_database_2.database_id` from `AF` to `AlphaFoldDB`",
                "url": "https://ftp.ebi.ac.uk/pub/databases/alphafold/CHANGELOG.txt",
                "snapshot_id": "s03",
                "char_start": 2021,
                "verified_on": "2026-11-13",
                "observed": "page",
                "captured_by": "pipeline"
              }
            ]
          }
        },
        {
          "version": "2022-07-28",
          "date": "2022-07-28",
          "kind": "format",
          "statement": {
            "text": {
              "en": "The changelog states that all CIF files are now ModelCIF-compliant.",
              "zh": "更新日志称所有 CIF 文件现已符合 ModelCIF。"
            },
            "evidence": [
              {
                "location": "dataset-page",
                "excerpt": "All CIF files are now ModelCIF-compliant",
                "url": "https://ftp.ebi.ac.uk/pub/databases/alphafold/CHANGELOG.txt",
                "snapshot_id": "s03",
                "char_start": 1624,
                "verified_on": "2026-11-13",
                "observed": "page",
                "captured_by": "pipeline"
              }
            ]
          }
        },
        {
          "version": "2022-07-28",
          "date": "2022-07-28",
          "kind": "access",
          "statement": {
            "text": {
              "en": "The changelog states that accession_ids.txt was renamed to accession_ids.csv.",
              "zh": "更新日志称 accession_ids.txt 已重命名为 accession_ids.csv。"
            },
            "evidence": [
              {
                "location": "dataset-page",
                "excerpt": "FTP: Renamed accession_ids.txt to accession_ids.csv.",
                "url": "https://ftp.ebi.ac.uk/pub/databases/alphafold/CHANGELOG.txt",
                "snapshot_id": "s03",
                "char_start": 3126,
                "verified_on": "2026-11-13",
                "observed": "page",
                "captured_by": "pipeline"
              }
            ]
          }
        },
        {
          "version": "2025-09-15",
          "date": "2025-09-15",
          "kind": "content-removed",
          "statement": {
            "text": {
              "en": "The changelog lists a removed count of 39,324,993.",
              "zh": "更新日志列出移除数量 39,324,993。"
            },
            "evidence": [
              {
                "location": "dataset-page",
                "excerpt": "Removed: 39,324,993",
                "url": "https://ftp.ebi.ac.uk/pub/databases/alphafold/CHANGELOG.txt",
                "snapshot_id": "s03",
                "char_start": 682,
                "verified_on": "2026-11-13",
                "observed": "page",
                "captured_by": "pipeline"
              }
            ]
          }
        },
        {
          "version": "unspecified",
          "date": "2025-09-15",
          "kind": "format",
          "statement": {
            "text": {
              "en": "In the 2025-09-15 release the mmCIF global pLDDT field was changed to a per-residue average instead of a per-atom average.",
              "zh": "2025-09-15 版本把 mmCIF 中的整体 pLDDT 改为按残基平均，而非按原子平均。"
            },
            "evidence": [
              {
                "location": "official-release-notes",
                "excerpt": "* CIF: Fixed global pLDDT `_ma_qa_metric_global.metric_value` to be computed as",
                "url": "https://ftp.ebi.ac.uk/pub/databases/alphafold/CHANGELOG.txt",
                "snapshot_id": "s03",
                "char_start": 821,
                "verified_on": "2026-11-14",
                "observed": "page",
                "source_work": {
                  "title": "AlphaFold DB CHANGELOG.txt",
                  "authors_or_org": "EMBL-EBI / Google DeepMind (AlphaFold DB)",
                  "date": "2025-09-15",
                  "date_as_written": "2025-09-15",
                  "source_type": "official-release-notes",
                  "open_access": true,
                  "doi_or_url": "https://ftp.ebi.ac.uk/pub/databases/alphafold/CHANGELOG.txt"
                }
              }
            ]
          }
        },
        {
          "version": "10",
          "date": "2022-11-01",
          "kind": "other",
          "statement": {
            "text": {
              "en": "In the 2022-11-01 (v4) release about 4.4% of predictions received updated coordinates, and structures with consecutive CA-CA distances above 10 Å were filtered out.",
              "zh": "2022-11-01（v4）版本约 4.4% 的预测坐标被更新，相邻 CA-CA 距离超过 10 Å 的结构被过滤掉。"
            },
            "evidence": [
              {
                "location": "official-release-notes",
                "excerpt": "* Structures with consecutive CA-CA distance > 10 A are now filtered out.",
                "url": "https://ftp.ebi.ac.uk/pub/databases/alphafold/CHANGELOG.txt",
                "snapshot_id": "s03",
                "char_start": 1183,
                "verified_on": "2026-11-14",
                "observed": "page",
                "source_work": {
                  "title": "AlphaFold DB CHANGELOG.txt",
                  "authors_or_org": "EMBL-EBI / Google DeepMind (AlphaFold DB)",
                  "date": "2022-11-01",
                  "date_as_written": "2022-11-01",
                  "source_type": "official-release-notes",
                  "open_access": true,
                  "doi_or_url": "https://ftp.ebi.ac.uk/pub/databases/alphafold/CHANGELOG.txt"
                }
              }
            ]
          }
        },
        {
          "version": "unspecified",
          "date": "2022-07-28",
          "kind": "format",
          "statement": {
            "text": {
              "en": "In the 2022-07-28 release all CIF files became ModelCIF-compliant and the PAE file format changed.",
              "zh": "2022-07-28 版本所有 CIF 文件改为符合 ModelCIF，PAE 文件格式也随之改变。"
            },
            "evidence": [
              {
                "location": "official-release-notes",
                "excerpt": "* All CIF files are now ModelCIF-compliant",
                "url": "https://ftp.ebi.ac.uk/pub/databases/alphafold/CHANGELOG.txt",
                "snapshot_id": "s03",
                "char_start": 1622,
                "verified_on": "2026-11-14",
                "observed": "page",
                "source_work": {
                  "title": "AlphaFold DB CHANGELOG.txt",
                  "authors_or_org": "EMBL-EBI / Google DeepMind (AlphaFold DB)",
                  "date": "2022-07-28",
                  "date_as_written": "2022-07-28",
                  "source_type": "official-release-notes",
                  "open_access": true,
                  "doi_or_url": "https://ftp.ebi.ac.uk/pub/databases/alphafold/CHANGELOG.txt"
                }
              }
            ]
          }
        }
      ],
      "history_url": null,
      "notes": [
        {
          "text": {
            "en": "Compared with v4, the 2025-09-15 release added 65,711,653 entries (including isoforms), removed 39,324,993 and changed 276,539.",
            "zh": "与 v4 相比，2025-09-15 版本新增 65,711,653 条（含异构体）、移除 39,324,993 条、变更 276,539 条。"
          },
          "evidence": [
            {
              "location": "official-release-notes",
              "excerpt": "* Removed: 39,324,993",
              "url": "https://ftp.ebi.ac.uk/pub/databases/alphafold/CHANGELOG.txt",
              "snapshot_id": "s03",
              "char_start": 680,
              "verified_on": "2026-11-14",
              "observed": "page",
              "source_work": {
                "title": "AlphaFold DB CHANGELOG.txt",
                "authors_or_org": "EMBL-EBI / Google DeepMind (AlphaFold DB)",
                "date": "2025-09-15",
                "date_as_written": "2025-09-15",
                "source_type": "official-release-notes",
                "open_access": true,
                "doi_or_url": "https://ftp.ebi.ac.uk/pub/databases/alphafold/CHANGELOG.txt"
              }
            }
          ]
        },
        {
          "text": {
            "en": "The FTP 'latest' folder holds the current archive files, while v* folders hold earlier versions.",
            "zh": "FTP 的 latest 目录存放当前归档文件，v* 目录存放对应历史版本。"
          },
          "evidence": [
            {
              "location": "dataset-page",
              "excerpt": "The folder “latest” contains the latest version of the archive files, while v* folders (e.g. v1, v2, etc.) have the corresponding versions of the archive files.",
              "url": "https://ftp.ebi.ac.uk/pub/databases/alphafold/README.txt",
              "snapshot_id": "s04",
              "char_start": null,
              "verified_on": "2026-11-14",
              "observed": "page",
              "source_work": {
                "title": "AlphaFold DB FTP README.txt",
                "authors_or_org": "EMBL-EBI / Google DeepMind (AlphaFold DB)",
                "date": "2025-10-20",
                "date_as_written": "2025-10-20",
                "source_type": "official-page",
                "open_access": true,
                "doi_or_url": "https://ftp.ebi.ac.uk/pub/databases/alphafold/README.txt"
              }
            }
          ]
        }
      ]
    },
    "known_defects": [],
    "fit": {
      "suited_for": [
        {
          "text": {
            "en": "The page states support for research into resistance mechanisms and new antimicrobial strategies.",
            "zh": "页面称支持针对耐药机制和新型抗菌策略的研究。"
          },
          "evidence": [
            {
              "location": "dataset-page",
              "excerpt": "Supports research into resistance mechanisms and new antimicrobial strategies.",
              "url": "https://alphafold.ebi.ac.uk/",
              "snapshot_id": "s01",
              "char_start": 747,
              "verified_on": "2026-11-12",
              "observed": "page",
              "captured_by": "pipeline"
            }
          ]
        },
        {
          "text": {
            "en": "The page states support for research on pathogens of major global public health importance.",
            "zh": "页面称支持对具有重大全球公共卫生重要性的病原体的研究。"
          },
          "evidence": [
            {
              "location": "dataset-page",
              "excerpt": "Supports research on pathogens of major global public health importance.",
              "url": "https://alphafold.ebi.ac.uk/",
              "snapshot_id": "s01",
              "char_start": 1130,
              "verified_on": "2026-11-12",
              "observed": "page",
              "captured_by": "pipeline"
            }
          ]
        },
        {
          "text": {
            "en": "Terwilliger et al. suggest treating AlphaFold predictions as hypotheses that accelerate but do not replace experimental structure determination.",
            "zh": "Terwilliger 等建议把 AlphaFold 预测当作假设，它能加速但不能取代实验结构测定。"
          },
          "evidence": [
            {
              "location": "peer-reviewed-paper",
              "excerpt": "We suggest considering AlphaFold predictions as exceptionally useful hypotheses.",
              "url": "https://pmc.ncbi.nlm.nih.gov/articles/PMC10776388/",
              "snapshot_id": "s06",
              "char_start": 7041,
              "verified_on": "2026-11-14",
              "observed": "page",
              "source_work": {
                "title": "AlphaFold predictions are valuable hypotheses and accelerate but do not replace experimental structure determination",
                "authors_or_org": "Terwilliger TC, Liebschner D, Croll TI, et al. (Nature Methods)",
                "date": "2023-11-30",
                "date_as_written": "2023-11-30",
                "source_type": "peer-reviewed-paper",
                "open_access": true,
                "doi_or_url": "https://pmc.ncbi.nlm.nih.gov/articles/PMC10776388/"
              }
            }
          ]
        },
        {
          "text": {
            "en": "AlphaFold DB states regions with pLDDT above 90 are generally modelled with high accuracy and suitable for applications such as characterising binding sites.",
            "zh": "AlphaFold DB 称 pLDDT 高于 90 的区域通常建模精度高，可用于表征结合位点等应用。"
          },
          "evidence": [
            {
              "location": "peer-reviewed-paper",
              "excerpt": "Regions with pLDDT greater than 90 are generally modelled with high accuracy, making them suitable for high accuracy-dependent applications such as characterising binding sites.",
              "url": "https://pmc.ncbi.nlm.nih.gov/articles/PMC10767828/",
              "snapshot_id": "s05",
              "char_start": 14180,
              "verified_on": "2026-11-14",
              "observed": "page",
              "source_work": {
                "title": "AlphaFold Protein Structure Database in 2024: providing structure coverage for over 214 million protein sequences",
                "authors_or_org": "Varadi M, Bertoni D, Magana P, et al. (Nucleic Acids Research)",
                "date": "2024-01-01",
                "date_as_written": "2024-01-01",
                "source_type": "peer-reviewed-paper",
                "open_access": true,
                "doi_or_url": "https://pmc.ncbi.nlm.nih.gov/articles/PMC10767828/"
              }
            }
          ]
        }
      ],
      "not_suited_for": [
        {
          "text": {
            "en": "The page states that if a use case is not covered by the database, users can generate their own AlphaFold predictions using the open source code.",
            "zh": "页面称如某用途未被该数据库覆盖，用户可使用该开源代码自行生成 AlphaFold 预测。"
          },
          "evidence": [
            {
              "location": "dataset-page",
              "excerpt": "If your use case isn't covered by the database, you can generate your own AlphaFold predictions using this open source code",
              "url": "https://alphafold.ebi.ac.uk/",
              "snapshot_id": "s01",
              "char_start": 2702,
              "verified_on": "2026-11-12",
              "observed": "page",
              "captured_by": "pipeline"
            }
          ]
        }
      ]
    },
    "commercial_access": {
      "route": "unknown",
      "url": null,
      "statement": null
    },
    "completeness": {
      "core_complete": true,
      "literature_defects": 0,
      "reachable_access": 0,
      "meets_practical_bar": false,
      "gaps": [
        {
          "field": "versioning.update_cycle",
          "note": "未找到有出处的说明 / no sourced statement found"
        },
        {
          "field": "known_defects",
          "note": "未找到有出处的说明 / no sourced statement found"
        },
        {
          "field": "commercial_access",
          "note": "未找到有出处的说明 / no sourced statement found"
        }
      ]
    }
  },
  "access_recipe": {
    "verified_on": "2026-11-14",
    "latest_release": null,
    "files": [],
    "api": [],
    "registration": null,
    "bulk_download": [],
    "gaps": [
      "no direct file address was found on the official pages we hold",
      "no latest release/version stated on the pages we hold",
      "the official pages we hold publish no checksum for the files; none was computed (we do not download data files)"
    ],
    "license_note": {
      "license_status": "permissive",
      "text": "Use according to the terms of the official source; this recipe does not say the data can be used freely."
    }
  },
  "_links": {
    "text": "在本库继续查找。本条目是 109 条已处理并核实的记录之一（数据集、数据资源与开源模型）。查找其他条目：调用 `https://mcp.mdexa.com/v1/datasets?q=<关键词>`，或连接 MCP 服务 `https://mcp.mdexa.com/mcp`；每分钟 20 次以内无需密钥。每行返回不到 1 KB；空结果即\"数据库未收录\"。核对一份清单：一次批量核对（免费账号）即返回报告。说明：/agents.md。相似条目：ClinPGx/PharmGKB (https://mdexa.com/zh/datasets/pharmgkb/)；GEO (https://mdexa.com/zh/datasets/geo/)；gnomAD (https://mdexa.com/zh/datasets/gnomad/)。",
    "records": 109,
    "search": {
      "template": "https://mcp.mdexa.com/v1/datasets?q={words}",
      "example": "https://mcp.mdexa.com/v1/datasets?q=%E7%BB%93%E5%90%88%E4%BA%B2%E5%92%8C%E5%8A%9B"
    },
    "mcp": "https://mcp.mdexa.com/mcp",
    "anonymous_calls_per_minute": 20,
    "guide": "https://mdexa.com/zh/agents.md",
    "faq": "https://mdexa.com/zh/developers/faq/",
    "similar": [
      {
        "name": "ClinPGx/PharmGKB",
        "url": "https://mdexa.com/zh/datasets/pharmgkb/",
        "json": "https://mdexa.com/zh/datasets/pharmgkb.json"
      },
      {
        "name": "GEO",
        "url": "https://mdexa.com/zh/datasets/geo/",
        "json": "https://mdexa.com/zh/datasets/geo.json"
      },
      {
        "name": "gnomAD",
        "url": "https://mdexa.com/zh/datasets/gnomad/",
        "json": "https://mdexa.com/zh/datasets/gnomad.json"
      }
    ]
  }
}