مورد إلكتروني
LigASite--a database of biologically relevant binding sites in proteins with known apo-structures.
| العنوان: | LigASite--a database of biologically relevant binding sites in proteins with known apo-structures. |
|---|---|
| المصدر: | Nucleic acids research, 36 |
| بيانات النشر: | 2008-01 |
| تفاصيل مُضافة: | Dessailly, Benoît Lensink, Marc Orengo, Christine A Wodak, Shoshana |
| نوع الوثيقة: | Electronic Resource |
| مستخلص: | Better characterization of binding sites in proteins and the ability to accurately predict their location and energetic properties are major challenges which, if addressed, would have many valuable practical applications. Unfortunately, reliable benchmark datasets of binding sites in proteins are still sorely lacking. Here, we present LigASite ('LIGand Attachment SITE'), a gold-standard dataset of binding sites in 550 proteins of known structures. LigASite consists exclusively of biologically relevant binding sites in proteins for which at least one apo- and one holo-structure are available. In defining the binding sites for each protein, information from all holo-structures is combined, considering in each case the quaternary structure defined by the PQS server. LigASite is built using simple criteria and is automatically updated as new structures become available in the PDB, thereby guaranteeing optimal data coverage over time. Both a redundant and a culled non-redundant version of the dataset is available at http://www.scmbb.ulb.ac.be/Users/benoit/LigASite. The website interface allows users to search the dataset by PDB identifiers, ligand identifiers, protein names or sequence, and to look for structural matches as defined by the CATH homologous superfamilies. The datasets can be downloaded from the website as Schema-validated XML files or comma-separated flat files. Journal Article Research Support, Non-U.S. Gov't info:eu-repo/semantics/published |
| مصطلحات الفهرس: | Chimie, Apoproteins -- chemistry, Apoproteins -- metabolism, Binding Sites, Databases, Protein -- statistics & numerical data, Internet, Ligands, Protein Conformation, User-Computer Interface, info:eu-repo/semantics/article, info:ulb-repo/semantics/articlePeerReview, info:ulb-repo/semantics/openurl/article |
| URL: | |
| الإتاحة: | Open access content. Open access content 2 full-text file(s): info:eu-repo/semantics/openAccess | info:eu-repo/semantics/restrictedAccess |
| ملاحظة: | 2 full-text file(s): application/pdf | application/pdf English |
| أرقام أخرى: | EQY oai:dipot.ulb.ac.be:2013/74191 uri/info:doi/10.1093/nar/gkm839 uri/info:pii/gkm839 uri/info:pmid/17933762 uri/info:scp/38549088882 uri/info:pmcid/PMC2238865 1363745308 |
| المصدر المساهم: | UNIVERSITE LIBRE DE BRUXELLES From OAIster®, provided by the OCLC Cooperative. |
| رقم الأكسشن: | edsoai.on1363745308 |
| قاعدة البيانات: | OAIster |
| الوصف غير متاح. |