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Explore Antibiotic Resistance in 3D

11/02 PDB101 News

The Comprehensive Antibiotic Resistance Database (CARD) contains curated information about resistance genes, their products and associated phenotypes. Antibiotic resistance gene data classifications have been mapped to PDB sequences that are close homologs to sequences present in CARD.

RCSB.org can access these classifications using the Browse Annotations: CARD tool, through the Annotations Tab on Structure Summary pages (e.g., PDB ID 8EHH), and by searching by Antibiotic Resistance Ontology (ARO) numbers (e.g., ARO:3000001 for beta-lactamases)

Browse Annotations: CARD

This feature offers access to structures in the PDB archive by browsing different hierarchical trees.

<I>Browse protein entities by exploring tree categories or enter a keyword in the search box.</i>Browse protein entities by exploring tree categories or enter a keyword in the search box.

Related documentation is available.

Structure Summary Annotations Tab

Related structures will have CARD information included in the Annotations Tab.

<I>Select the <a href="https://www.rcsb.org/annotations/8EHH#cardGene">Annotations Tab</a> of a Structure Summary page to access CARD mappings.</I>Select the Annotations Tab of a Structure Summary page to access CARD mappings.

Related documentation is available.

Advanced Searching by Antibiotic Resistance Ontology (ARO)

Exact and close matches to the resistance genes were identified in PDB entries and annotated with relevant ARO identifiers and additional information antibiotics resistance related information. For example, you can search for all PDB sequences annotated as "determinant of antibiotic resistance" searching on (ARO:3000000).

<I>CARD and <a href="https://www.rcsb.org/search?request=%7B%22query%22%3A%7B%22type%22%3A%22group%22%2C%22nodes%22%3A%5B%7B%22type%22%3A%22group%22%2C%22nodes%22%3A%5B%7B%22type%22%3A%22group%22%2C%22nodes%22%3A%5B%7B%22type%22%3A%22group%22%2C%22nodes%22%3A%5B%7B%22type%22%3A%22terminal%22%2C%22service%22%3A%22text%22%2C%22parameters%22%3A%7B%22attribute%22%3A%22rcsb_polymer_entity_annotation.annotation_lineage.id%22%2C%22operator%22%3A%22exact_match%22%2C%22value%22%3A%22ARO%3A3000000%22%7D%7D%2C%7B%22type%22%3A%22terminal%22%2C%22service%22%3A%22text%22%2C%22parameters%22%3A%7B%22attribute%22%3A%22rcsb_polymer_entity_annotation.type%22%2C%22operator%22%3A%22exact_match%22%2C%22value%22%3A%22CARD%22%7D%7D%5D%2C%22logical_operator%22%3A%22and%22%2C%22label%22%3A%22nested-attribute%22%7D%5D%2C%22logical_operator%22%3A%22and%22%7D%5D%2C%22logical_operator%22%3A%22and%22%2C%22label%22%3A%22text%22%7D%5D%2C%22logical_operator%22%3A%22and%22%7D%2C%22return_type%22%3A%22polymer_entity%22%2C%22request_options%22%3A%7B%22paginate%22%3A%7B%22start%22%3A0%2C%22rows%22%3A25%7D%2C%22results_content_type%22%3A%5B%22experimental%22%5D%2C%22sort%22%3A%5B%7B%22sort_by%22%3A%22score%22%2C%22direction%22%3A%22desc%22%7D%5D%2C%22scoring_strategy%22%3A%22combined%22%7D%2C%22request_info%22%3A%7B%22query_id%22%3A%223dad5d45635a3cb32c774cf58e9fcab4%22%7D%7D">Advanced Search</a></I>CARD and Advanced Search
<I><a href="https://pdb101.rcsb.org/browse/antimicrobial-resistance">PDB-101 also hosts materials that show how PDB structures help our understanding of resistance to antibiotics and develop new ways to fight infection.</a></I>PDB-101 also hosts materials that show how PDB structures help our understanding of resistance to antibiotics and develop new ways to fight infection.

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