2013-04-10T13:08:42-07:00
Resource:NCBI Structure
NCBI Structure
Structure Group
NCBI Computational Biology Branch
Freely available to the public.
curated
http://www.ncbi.nlm.nih.gov/Structure/index.shtml
Public database that will link you to the content of many databases focusing on Macromolecular structures, Conserved domains and protein classification, Small molecules and their biological activity, and Biological Systems.
* Macromolecular structures: The three-dimensional structures of biomolecules provide a wealth of information on their biological function and evolutionary relationships. The Molecular Modeling Database (MMDB), as part of the Entrez system, facilitates access to structure data by connecting them with associated literature, protein and nucleic acid sequences, chemicals, biomolecular interactions, and more. It is possible, for example, to find 3D structures for homologs of a protein of interest by following the "Related Structure" link in an Entrez Protein sequence record.
* Conserved domains and protein classification: Conserved domains are functional units within a protein that act as building blocks in molecular evolution and recombine in various arrangements to make proteins with different functions. The Conserved Domain Database (CDD) brings together several collections of multiple sequence alignments representing conserved domains, in addition to NCBI-curated domains that use 3D-structure information explicitly to define domain boundaries and provide insights into sequence/structure/function relationships.
* Small molecules and their biological activity: The PubChem project provides information on the biological activities of small molecules and is a component of NIH's Molecular Libraries Roadmap Initiative. PubChem includes three databases: PCSubstance, PCBioAssay, and PCCompound. The PubChem data are linked to other data types (illustrated example) in the Entrez system, making it possible, for example, to retrieve information about a compound and then "Link" to its biological activity data, retrieve 3D protein structures bound to the compound and interactively view their active sites, and find biosystems that include the compound as a component.
* Biological Systems: A biosystem, or biological system, is a group of molecules that interact directly or indirectly, where the grouping is relevant to the characterization of living matter. The NCBI BioSystems Database provides centralized access to biological pathways from several source databases and connects the biosystem records with associated literature, molecular, and chemical data throughout the Entrez system. BioSystem records list and categorize components (illustrated example), such as the genes, proteins, and small molecules involved in a biological system. The companion FLink icon FLink tool, in turn, allows you to input a list of proteins, genes, or small molecules and retrieve a ranked list of biosystems.
nlx_23947
Resource:NCBI Structure
2013-03-14T00:00:00
Resource
Resource
SuperCategory
Resource:PubMed
Resource:Vector Alignment Search Tool
Resource:IBIS: Inferred Biomolecular Interactions Server
Resource:NCBI Structure: Cn3D
Resource:CBLAST
Resource:Molecular Modeling DataBase
Resource:Conserved Domain Database
Resource:NCBI BioSystems Database
Resource:PubChem
RelatedTo
ModifiedDate
Label
Alignment
Gene
Structure
Biological system
Biosystem
Molecule
Biological activity
Small molecule
Protein
Protein classification
Conserved domain
Macromolecule
Gold standard or authority
Keywords
Resource:NCBI
Is part of
Id
Data analysis service
3D spatial image
Database
Topical portal
Has role
File:NCBI Structure.PNG
ExampleImage
Definition
DefiningCitation
CurationStatus
Availability
Address
Abbrev