MCP tools

3,697 tool names from published servers. 24 are shared by at least 3 servers and are included in the sitemap.

452 matching

rcsb_get_polymer_entities
1 server
Polymer entities (protein/NA)
- RCSB PDB
rcsb_get_polymer_entity_groups
1 server
Polymer entity groups (seq. clusters)
- RCSB PDB
rcsb_get_polymer_entity_instances
1 server
Polymer chains
- RCSB PDB
rcsb_get_pubmed
1 server
PubMed record (single, integer)
- RCSB PDB
rcsb_get_uniprot
1 server
UniProt record (single)
- RCSB PDB
rcsb_list_pdb_search_attributes
1 server
Discover searchable attribute paths, types, and operators. schema="structure" (default, ~636) or schema="chemical" (~58: chemcomp., drugbankinfo., ...). Records also carry enum (closed value sets) and nestedgroup (attributes stored in neste
- RCSB PDB
rcsb_query_attribute
1 server
Structured query on one or more indexed attributes (resolution, organism, release date, ...) joined by a single logicaloperator. Each condition supports exists, negation, casesensitive; chemicalattributes=True selects the chemical-component

RCSB PDB

`rcsb_query_chemical`

1 server

Chemical query by SMILES/InChI descriptor (whole-molecule or substructure) or molecular formula.

RCSB PDB

`rcsb_query_composer`

1 server

Join 2+ query documents with AND/OR — nested boolean logic, and the only way to combine different services in one search.

RCSB PDB

`rcsb_query_fulltext`

1 server

Free-text keyword query (e.g. "CRISPR Cas9").

RCSB PDB

`rcsb_query_seqmotif`

1 server

Short sequence-motif query (PROSITE pattern, regex, or simple wildcards).

RCSB PDB

`rcsb_query_sequence`

1 server

MMseqs2 sequence-similarity query (BLAST-like), with identity / e-value cutoffs.

RCSB PDB

`rcsb_query_strucmotif`

1 server

3D structural-motif query: a geometric arrangement of specific residues (e.g. a catalytic triad).

RCSB PDB

`rcsb_query_structure`

1 server

3D shape-similarity query against a reference PDB assembly or chain.

RCSB PDB

`rcsb_render_report`

1 server

Render a structured report of search results — title, columns, rows and evidence — into a formatted HTML document for the user.

RCSB PDB

Execute a query document and return matching identifiers only. Carries every output option: returntype, limit/offset, allhits, facets, sortby/sortdirection, groupby/groupbyranking, includecomputedmodels.

RCSB PDB

`rcsb_seqcoord_alignments`

1 server

Cross-reference a sequence across PDB / UniProt / NCBI with aligned ranges (e.g. 4HHB1 → NCBI proteins NP000508, NP000549).

RCSB PDB

`rcsb_seqcoord_annotations`

1 server

Positional features of a PDB entity or instance (7CUT1, 4HHB.A) from UniProt, the entity, its instances and their interfaces, optionally only some featuretypes (ACTIVESITE); the sources follow from the types.