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get_sequence_conservation_pdb_entity_api_pdb_sequence_conser

Read-only

Retrieve residue-level sequence conservation scores and amino-acid probability distributions for a specified PDB entry and entity ID.

Instructions

Returns residue-level sequence conservation data for a specified PDB entry ID and PDB entity ID, including per-residue conservation scores and amino-acid probability distributions.

Input Schema

TableJSON Schema
NameRequiredDescriptionDefault
pdb_idYes4-character PDB id code. title: Pdb Id description: 4-character PDB id code.
entity_idYesEntity id (molecule number in mmcif-speak). type: string pattern: ^[0-9]+$ title: Entity Id description: Entity id (molecule number in mmcif-speak).
Behavior3/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

Annotations already declare readOnlyHint=true and destructiveHint=false, so the safe read behavior is established. The description adds the output details (per-residue scores, probability distributions) but does not mention any additional behavioral traits like rate limits or response format.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness5/5

Is the description appropriately sized, front-loaded, and free of redundancy?

Single sentence that concisely and front-loads the purpose. No unnecessary words.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness4/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

For a tool with two simple parameters and no output schema, the description provides adequate context about what is returned. However, it could be slightly more explicit about the response format, though the core functionality is clear.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters3/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

Schema coverage is 100%, with both parameters documented. The description does not add new semantic meaning beyond restating the parameters. Baseline score of 3 is appropriate.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose5/5

Does the description clearly state what the tool does and how it differs from similar tools?

The description clearly states it returns residue-level sequence conservation data for a specific PDB entry and entity, including per-residue scores and probability distributions. This distinguishes it from sibling tools like get_sequence_conservation_uniprot, which focuses on UniProt.

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines2/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

No explicit guidance on when to use this tool vs alternatives, or when not to use it. The description lacks context for selection among sibling tools.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

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