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uniprot_search_uniref

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Search UniRef clusters using a query and identity tier filter. Retrieve clusters matching specified sequence identity thresholds.

Instructions

Search UniRef clusters. identity_tier filters by % identity: "50" (loosest), "90", "100" (tightest), or empty for all tiers. Examples: query='kinase' identity_tier='90' returns the 90 % clusters.

Input Schema

TableJSON Schema
NameRequiredDescriptionDefault
queryYes
identity_tierNo
sizeNo
response_formatNomarkdown

Output Schema

TableJSON Schema
NameRequiredDescriptionDefault
resultYes
Behavior3/5

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

Annotations already declare readOnlyHint=true and openWorldHint=true, and the description does not contradict these. It adds behavior about identity_tier values but no further details on characteristics like rate limits or result variability.

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?

Three sentences, front-loaded with main action, no fluff. Example adds clarity efficiently.

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?

Given output schema exists, the description covers purpose and key parameter well. Minor missing details: no mention of response_format values or size limits, but sufficient for most use cases.

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 0%, so description must compensate. It adds meaning for identity_tier (explains values and effect) and provides an example with query. However, size and response_format remain undocumented.

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

Purpose4/5

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

The description clearly states the tool searches UniRef clusters and explains the identity_tier filter with an example. It distinguishes from siblings by specifying 'UniRef clusters', but does not explicitly differentiate among the many search tools.

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 guidance on when to use this tool versus alternatives like uniprot_search or uniprot_get_uniref. The description only explains the identity_tier parameter without indicating context for selection.

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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