How To Use the Molecular Modeling Database (MMDB) (original) (raw)
| 3D Macromolecular Structures | OVERVIEW SEARCH HOW TO HELP NEWS FTP PUBLICATIONS DISCOVER | |
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| How to use the Molecular Modeling Database (MMDB) and related resources: examples |
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| This page provides quick start guides for some common types of searches.The MMDB Help document provides additional search tips. Once records of interest are retrieved, follow Entrez's "Links" to discover associations among previously disparate data. |
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| Retrieve specific subsets of resolved structures Find structures for a gene/protein product of interest. Find 3D structures bound to a specific chemical (e.g., aspirin). Find 3D structures bound to a specific small biopolymer (e.g., a peptide). Retrieve 3D structures for a specific type of molecule, such as protein, RNA, DNA, protein+chemical, etc. Retrieve all structures from a particular source organism or taxon. Find structural templates for proteins Align a query protein to a similar sequence from a 3D structure and interactively view sequence/structure relationships. Find structures that are similar in 3D shape (using VAST) Find structures with similarly shaped proteins or 3D domains, regardless of their degree of sequence similarity. [VAST] Find structures with similarly shaped biological assemblies, regardless of their degree of sequence similarity. [VAST+] Compare a newly resolved 3D structure in PDB format against the 3D coordinates of known structures already in the public domain. [VAST Search] View 3D structures Interactively view a 3D structure and its corresponding sequence data to examine sequence-structure relationship. Identify putative active site residues. |
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