Enhancing Cryo-EM Density Map Segmentation in Phenix for Improved Atomic Model Building

TL;DR

PhenixCraft is an automated pipeline that integrates AlphaFold predictions to improve cryo-EM density map segmentation and atomic model building, achieving higher accuracy and efficiency.

Contribution

It introduces a novel integration of AlphaFold with Phenix to enhance segmentation and model building from cryo-EM maps.

Findings

PhenixCraft outperforms traditional methods in TM-scores.

It achieves higher sequence accuracy in model building.

The pipeline effectively addresses noise and artifacts in cryo-EM maps.

Abstract

We introduce PhenixCraft, a fully automated pipeline for building atomic models from cryo-EM density maps. By integrating AlphaFold predictions, we enhance the map-segmentation step in Phenix during model building, addressing challenges posed by noise and artifacts that traditionally hinder this step. Our results demonstrate PhenixCraft's superior performance in TM-scores and sequence accuracy, significantly improving upon the limitations and inefficiencies of traditional model building using Phenix.