Skills › Scientific Agent Skills › database-lookup › emdb.md
emdb.md
37 lines · skills/database-lookup/references/emdb.md at 5f2bc03
EMDB (Electron Microscopy Data Bank)
Raw lines 1 to 211## Key Endpoints
13| Endpoint | Description |
14|----------|-------------|
15| `/entry/{emdb_id}` | Full entry metadata (e.g. EMD-1234) |
16| `/entry/map/{emdb_id}` | Map/volume metadata |
17| `/entry/experiment/{emdb_id}` | Experimental details |
18| `/entry/fitted/{emdb_id}` | Fitted PDB models |
19| `/search/{query}?rows={n}` | Search entries by keyword |
Key Endpoints
| Endpoint | Description |
|---|---|
/entry/{emdb_id} | Full entry metadata (e.g. EMD-1234) |
/entry/map/{emdb_id} | Map/volume metadata |
/entry/experiment/{emdb_id} | Experimental details |
/entry/fitted/{emdb_id} | Fitted PDB models |
/search/{query}?rows={n} | Search entries by keyword |
21## Example Calls
22```
23# Entry metadata
24https://www.ebi.ac.uk/emdb/api/entry/EMD-1234
26# Search for ribosome entries
27https://www.ebi.ac.uk/emdb/api/search/ribosome?rows=5
29# Experimental details
30https://www.ebi.ac.uk/emdb/api/entry/experiment/EMD-1234
31```
Example Calls
# Entry metadata
https://www.ebi.ac.uk/emdb/api/entry/EMD-1234
# Search for ribosome entries
https://www.ebi.ac.uk/emdb/api/search/ribosome?rows=5
# Experimental details
https://www.ebi.ac.uk/emdb/api/entry/experiment/EMD-123433## Response Format
34JSON. Search accepts `rows`, `page`, and `fl` (field selection); inspect its returned search envelope and pagination before iterating. Entry metadata is an object with `emdb_id`, `map`, and experimental/sample sections, not the map density file itself.
Response Format
JSON. Search accepts rows, page, and fl (field selection); inspect its returned search envelope and pagination before iterating. Entry metadata is an object with emdb_id, map, and experimental/sample sections, not the map density file itself.
Rate Limits
EBI fair-use policy. Map files (MRC/CCP4) available via FTP for bulk access.
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