TOOLS and Databases

List of our cryo-EM Modeling Tools and Databases

Recent Updates

June 6, 2023 : EM Tool Server is online.
May 1, 2023 : DAQ-Score Database is released!

EM Map Analysis

DAQ Score

An Advanced Computational Tool for Local Quality Estimation of Protein Models from EM Maps Using Deep Learning

Emap2Sec+

An Advanced Deep Learning Tool for Identifying Protein Secondary Structures and Nucleic Acids in Medium-to-Low Resolution EM Maps.

Emap2Sec

An Advanced Deep Learning Tool for Accurately Identifying Protein Secondary Structures in Medium-to-Low Resolution EM Maps.

MainMast_Seg

A Tool for Directly Segmenting Individual Components from EM Maps Using Symmetry Restraints and Minimum Spanning Trees.

EM-GAN

A Computational Tool for More Effective Protein Structure Information Capture Using Deep Learning.

Database

DAQ-Score Database

A Database of Precomputed Residue-Wise Local Quality Scores for Protein Models from Cryo-EM Maps.

EM-SURFER

A web-based tool for real-time comparison and analysis of EM density maps.

Modeling & Refinement

DeepMainMast

A modeling tool that builds protein 3D models from EM maps using deep learning and can assign chain identity to homo-multimers.

CryoREAD

An Advanced Computational Tool for Automatic Building of Full DNA/RNA Atomic Structures from Cryo-EM Maps Using Deep Learning.

DAQ-refine

A Model Refinement tool for Low-quality Regions in a protein structure model by DAQ score and AlphaFold2.

MainMast

A Modeling Tool that directly traces main-chain connections and C-alpha positions by using Tree-Graph models.

VESPER

Map-map fitting Tool for Accurate Superimposition of EM Maps Using Mean Shift Algorithm and FFT.

EM Tool Server

EM Tool Server

cryo-READ, Emap2sec+, DeepMainmast, VESPER are available on kiharalab server.