Structural Classification Of Protein (SCOP)
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The Structural Classification of Proteins (SCOP) database is a key resource for understanding protein structural and evolutionary relationships, grouping proteins into families based on similarities. It has evolved into SCOPe, which incorporates new features and updates while remaining compatible with the original SCOP. Despite its utility, SCOP faces challenges such as potential biases in manual classification and limitations in capturing the full complexity of protein function.
![SCOP2 represents a marked
change from the SCOP
classification structure and
is currently available as a
prototype with only a small
number of classified
families. SCOP2 replaces
the tree-like SCOP
hierarchy with a directed
acyclic graph, allowing
curators to represent
structural and evolutionary
relationships between
proteins in more precise
detail.
SCOP (version 1) is a
database that originated in
1994 for protein structure
classification [PubMed].
The last version of this
database, 1.75, was
released in June 2009 and
is still available both in
Cambridge UK and on the
SCOPe website. SCOP 1.75
classifies 38,221 PDB
entries.
SCOPe continues the
development and maintenance
of the classic SCOP hierarchy
and may be seen as a
continuation of the SCOP
database, with ongoing
updates and new
classifications [PubMed].
SCOPe is completely
backward compatible with
SCOP (version 1), including
all the same parseable files
that we previously released
separately in SCOP and Astral
releases. As of March 2018,
SCOPe 2.07-stable classifies
87,224 PDB entries.](https://image.slidesharecdn.com/scoppresentationaishna-240528094830-ff171a62/85/Structural-Classification-Of-Protein-SCOP-4-320.jpg)
Structural Classification Of Protein (SCOP)
- 1. Structural Classification of Proteins by Aishna Srivastava M.Sc. Plant Pathology SCOP DATABASE
- 2. Introduction The Structural Classification of Proteins (SCOP) database is a comprehensive and authoritative resource for the structural and evolutionary relationships of proteins. It provides a detailed and curated classification of protein structures, grouping them into families, superfamilies, and folds based on their structural and sequence similarities.
- 3. Evolution of SCOP Structural Classification of Proteins — extended (SCOPe) is a database of protein structural relationships that extends the SCOP database. Merger in SCOP SCOPe also incorporates and updates the Astral compendium. Astral provides several databases and tools to aid in the analysis of the protein structures classified in SCOP, particularly through the use of their sequences. New releases of Astral are derived from SCOPe.
- 4. SCOP2 represents a marked change from the SCOP classification structure and is currently available as a prototype with only a small number of classified families. SCOP2 replaces the tree-like SCOP hierarchy with a directed acyclic graph, allowing curators to represent structural and evolutionary relationships between proteins in more precise detail. SCOP (version 1) is a database that originated in 1994 for protein structure classification [PubMed]. The last version of this database, 1.75, was released in June 2009 and is still available both in Cambridge UK and on the SCOPe website. SCOP 1.75 classifies 38,221 PDB entries. SCOPe continues the development and maintenance of the classic SCOP hierarchy and may be seen as a continuation of the SCOP database, with ongoing updates and new classifications [PubMed]. SCOPe is completely backward compatible with SCOP (version 1), including all the same parseable files that we previously released separately in SCOP and Astral releases. As of March 2018, SCOPe 2.07-stable classifies 87,224 PDB entries.
- 6. Reason for Genesis SCOP was designed to organize the rapidly growing number of protein structures determined by X - ray crystallography and NMR spectroscopy. The database aimed to group proteins into families, superfamilies, and folds based on their structural and evolutionary relationships. • A new set of features providing a solid basis to manage the increasing number of experimental structures expected from structural genomics projects. • These features include: a new set of identifiers, which uniquely identify each entry in the hierarchy; a compact representation of protein domain classification; a new set of parseable files, which fully describe all domains in SCOP and the hierarchy itself. These new features are reflected in the ASTRAL compendium.
- 8. Difference between SCOP, PDB, CATH and other
- 10. The SCOP database provides a robust and hierarchical classification system for protein structures, enabling researchers to easily identify evolutionary relationships and structural similarities between different proteins. This facilitates advanced comparative analysis and accelerates protein function research. The SCOP database features a user-friendly interface that allows scientists to efficiently browse, search, and retrieve detailed information about protein structures and their evolutionary relationships. This streamlines bioinformatics research and enables rapid data- driven discoveries. The SCOP database is a valuable resource for a wide range of bioinformatics applications, including structural biology, protein engineering, drug design, and evolutionary studies. Its comprehensive data and intuitive interface make it an essential tool for researchers in these fields. Comprehensive Protein Classification Intuitive Interface and Data Access Diverse Applications in Bioinformatics
- 11. Limitations and Challenges of Scop Database 01 02 03 04 May not capture the full complexity of protein function and evolution . This can limit its usefulness in certain bioinformatics applications that require a more comprehensive understanding of protein biology. The classification of proteins in SCOP is largely manual and relies on the expertise and judgment of the curators. This can introduce subjectivity and bias, which may lead to inconsistencies or errors in the database. Updating it to include new protein structures or revising existing classifications can be a time-consuming and labor-intensive process Database is not always well-suited for large-scale, automated analysis of protein data. This can make it challenging to integrate SCOP with other bioinformatics tools and workflows.
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