WHAT CHECK Flashcards
(2 cards)
WhatCheck – A Tool in Bioinformatics
Purpose: Validates and checks the accuracy of protein structures.
SAVES- structural analysis and verification server
Type: Part of the WHAT IF suite for molecular modeling.
Key Features:
Structural Validation: Ensures protein models follow chemical and physical rules.
Geometric Checks:
Bond lengths and angles
Peptide bond planarity
Chirality
Ramachandran plot for torsion angles
Non-Covalent Interactions:
Verifies hydrogen bonds
Identifies Van der Waals clashes
Environment Checks:
Solvent accessibility and residue packing
Atomic Occupancy and B-Factors:
Ensures correct atomic placement and evaluates atomic vibration (B-factors).
Reference Comparison: Compares structures with highly resolved models.
Importance:
Improves model accuracy and biological relevance.
Used for quality control of PDB entries.
Ensures proper protein functionality through structural integrity checks.
WhatCheck – A Tool in Bioinformatics
Purpose: Validates and checks the accuracy of protein structures.
Type: Part of the WHAT IF suite for molecular modeling.
Key Features:
Structural Validation: Ensures protein models follow chemical and physical rules.
Geometric Checks:
Bond lengths and angles
Peptide bond planarity
Chirality
Ramachandran plot for torsion angles
Non-Covalent Interactions:
Verifies hydrogen bonds
Identifies Van der Waals clashes
Environment Checks:
Solvent accessibility and residue packing
Atomic Occupancy and B-Factors:
Ensures correct atomic placement and evaluates atomic vibration (B-factors).
Reference Comparison: Compares structures with highly resolved models.
Importance:
Improves model accuracy and biological relevance.
Used for quality control of PDB entries.
Ensures proper protein functionality through structural integrity checks.
