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Resource:Molecular Modeling DataBase

Name: Resource:Molecular Modeling DataBase
Description: The Molecular Modeling DataBase (MMDB), also known as "Entrez Structure," is a database of experimentally determined structures obtained from the RCSB Protein Data Bank (PDB). MMDB is developed by the Structure Group of the NCBI Computational Biology Branch. The data processing procedure at NCBI results in the addition of a number of useful features that facilitate computation on the data and link them to many other data types in the Entrez system.

The structure database is considerably smaller than Entrez's Protein or Nucleotide databases, but a large fraction of all known protein sequences have homologs in this set, and one may often learn more about a protein by examining 3-D structures of its homologs. These are accessible as "Related Structures" in the "Links" menu of Entrez Protein sequence records (illustrated example). It is then possible to align the query protein to the structure-based sequence, as shown in the illustration on this page.

Additional resources can be used along with MMDB to interactively view the structures, find similar 3D structures, learn about the types of interactions and bound chemicals that have been found to exist among the similar 3D structures, and more.
Other Name(s): Entrez Structure, Structure database, NCBI Structure, Structure (Molecular Modeling Database)
Parent Organization: Resource:National Center for Biotechnology Information
Resource Type(s): Web accessible database, Downloadable database, Analysis service resource, 3D spatial image
Keywords: Macromolecule, Structure, Gold standard or authority
Abbreviation: MMDB, Structure
Resource: Resource
URL: http://www.ncbi.nlm.nih.gov/sites/entrez?db=structure
PMID: PMID 17135201
Id: nlx_56387
Link to OWL / RDF: Download this content as OWL/RDF

Categories related to Resource:Molecular Modeling DataBase

Resource:NCBI Structure

Curation status: Curated

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Notes

This page uses this default form:Resource

Contributors

Aarnaud, Akash, Ccdbuser, Memartone



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Facts about Resource:Molecular Modeling DataBaseRDF feed
AbbrevMMDB, Structure  +
CurationStatuscurated  +
DefiningCitationhttp://www.ncbi.nlm.nih.gov/sites/entrez?db=structure  +
DefinitionThe Molecular Modeling DataBase (MMDB), al The Molecular Modeling DataBase (MMDB), also known as "Entrez Structure," is a database of experimentally determined structures obtained from the RCSB Protein Data Bank (PDB). MMDB is developed by the Structure Group of the NCBI Computational Biology Branch. The data processing procedure at NCBI results in the addition of a number of useful features that facilitate computation on the data and link them to many other data types in the Entrez system.

The structure database is considerably smaller than Entrez's Protein or Nucleotide databases, but a large fraction of all known protein sequences have homologs in this set, and one may often learn more about a protein by examining 3-D structures of its homologs. These are accessible as "Related Structures" in the "Links" menu of Entrez Protein sequence records (illustrated example). It is then possible to align the query protein to the structure-based sequence, as shown in the illustration on this page.

Additional resources can be used along with MMDB to interactively view the structures, find similar 3D structures, learn about the types of interactions and bound chemicals that have been found to exist among the similar 3D structures, and more.
among the similar 3D structures, and more.
ExampleImageStructure.PNG  +
Has default formThis property is a special property in this wiki.Resource  +
Has roleWeb accessible database  +, Downloadable database  +, Analysis service resource  +, and 3D spatial image  +
Idnlx_56387  +
Is part ofResource:National Center for Biotechnology Information  +
KeywordsMacromolecule  +, Structure  +, and Gold standard or authority  +
LabelResource:Molecular Modeling DataBase  +
ModifiedDate9 April 2012  +
PMID17135201  +
Page has default formThis property is a special property in this wiki.Resource  +
SuperCategoryResource  +
SynonymEntrez Structure  +, Structure database  +, NCBI Structure  +, and Structure (Molecular Modeling Database)  +