checkMySequence

checkMySequence detects register-shift errors in protein models built into cryo-electron microscopy (cryo-EM) maps to improve sequence-to-structure assignment accuracy.

Key Features:

• Automated register-shift detection: Performs fully automated identification of sequence-register errors in protein models embedded in cryo-EM maps.
• Parameter-free operation: Operates without requiring user-adjustable parameters.
• Python implementation: Distributed and implemented as a Python package.
• Targets rebuilding/refinement errors: Specifically detects register shifts introduced during local rebuilding and refinement of models.
• Robustness to suboptimal resolution: Aids detection of register errors when cryo-EM map resolution impedes visual interpretation.

Scientific Applications:

• Cryo-EM model validation: Detects and flags register-shift errors in protein models built into cryo-EM maps for downstream correction.
• Validation of AI-derived models: Assesses sequence placement in models derived or refined after artificial intelligence–based protein structure prediction.
• Case study — SARS-CoV-2 RNA-dependent RNA polymerase: Demonstrated ability to detect a sequence-register error in a SARS-CoV-2 RNA-dependent RNA polymerase model.

Methodology:

Implemented as a Python package that performs automated detection of register-shift errors in protein models embedded in cryo-EM maps and operates without adjustable parameters.