SecStrAPI
version 1.0
SecStrAPI is a service providing annotation of secondary structure elements in protein structures.
Annotation of Secondary Structure Elements /Annotation/<pdbId>
Returns a JSON response with the list of annotated secondary structure elements for the specified PDB entry.
Examples
/Annotation/1tqnParameters
| Name | Description |
|---|---|
| pdbId | PDB ID of the entry (e.g. 1tqn). |
Output Details
The response format is explained here.
Extras
| File | Description |
|---|---|
| secstrapi_plugin-1.4.py |
This PyMOL plugin can be used to download annotations from this API and visualize them directly in PyMOL.
Install via Plugin Manager or type
run https://webchem.ncbr.muni.cz/API/SecStr/Downloads/secstrapi_plugin.py. Example of usage: annotate_sec_str 1og5 and chain A (Fetches the structure of 1og5 and annotates its chain A using annotation from SecStrAPI.) annotate_sec_str 1og5 and chain A, my_annotations/1og5.sses.json (Does the same, but uses annotation from the specified file instead of the one from SecStrAPI.) annotate_sec_str 1og5A (Fetches the structure of 1og5 and annotates domain 1og5A (~ chain A).) |
| SecStrAPI-CytochromesP450-20200707.zip | All available annotations |
List of Available Annotations /List/Annotation
Returns a JSON response with PDB IDs for which a secondary structure annotation is available.
Examples
/List/AnnotationOutput Details
Response is a JSON object in which the keys are PDB IDs and the values are lists of domains that are annotated for each PDB ID.
SecStrAPI is a part of services provided by ELIXIR – European research infrastructure for biological information. For other services provided by ELIXIR's Czech Republic Node visit www.elixir-czech.cz/services.
© 2017 – now, Adam Midlik