QSCOP BLAST

QSCOP BLAST performs BLAST sequence searches against the Quantitative SCOP (QSCOP) database to map protein sequences to QSCOP/SCOP structural classifications for structural analysis.

Key Features:

• Integration with BLAST: Executes BLAST sequence searches directly against the QSCOP database to retrieve matched sequences and associated structural classifications.
• Quantitative structural information: Leverages QSCOP's quantified structural annotations that extend SCOP families to capture structural diversity and complexity.
• Alignment with RCSB PDB: Relies on QSCOP alignment with the Research Collaboratory for Structural Bioinformatics (RCSB) Protein Data Bank to reference experimentally determined structures.
• Hierarchical organization and redundancy management: Uses QSCOP's hierarchical classification to organize hits and manage redundancy and structural diversity among retrieved matches.

Scientific Applications:

• Protein classification: Assigns protein sequences to SCOP-derived families using QSCOP's quantitative classifications.
• Evolutionary analysis: Identifies homologous sequences and structural relationships to support evolutionary inference.
• Functional annotation: Links sequence hits to structural classifications to inform putative functional assignments.
• Structural relationship mapping: Maps sequences to quantified structural variants within SCOP families to explore structural diversity.

Methodology:

BLAST is used to perform sequence searches against the QSCOP database; matched sequences are associated with QSCOP's quantified SCOP classifications to provide structural context and identify homologs.