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EMSuite Server

The RoadMap that you can access below contains 16 algorithms developed by Kihara Lab for structure modeling, validation and refinement of cryo-EM maps. After viewing the RoadMap you can choose any of the 16 algorithms to submit your job. For best results please view the Tutorial before submitting a job. Additionally, you will receive detailed instructions in the submission page on how to interpret output and prepare inputs.

RoadMap Tutorial
Recent Updates All Updates →
v10.13.1 October 7th, 2026 Emap2lig-Build can now optionally load a PDB structure, either from a local file or by PDB ID, and display it alongside the cryo-EM map so users can see roughly where in the protein the ligand may be modeled.
v10.13.0 August 18th, 2026 Thumbnail view and job title are now available. You can see the job's output preview directly in the job list, without opening the detail page.
v10.12.3 August 14th, 2026 Fixed Emap2lig-Find environment error.
Category Structure Type Resolution Methods
Structure Modeling Protein ~5 Å DeepMainMast

~5 Å
DeepMainMast Image
MainMast (single-chain only)

~5 Å
MainMast Image
~15 Å DiffModeler (template input)

~15 Å
DiffModeler Image
DiffModeler (sequence input)

~15 Å
DiffModeler(seq) Image
3-15 Å DMcloud

3-15 Å
DMcloud Image
DNA/RNA ~5 Å CryoREAD

~5 Å
Protein
DNA/RNA
Protein-DNA/RNA Complex		 ~10 Å CryoZeta

~10 Å
DMcloudComplex

~10 Å
DMcloudComplex Image
~5 Å ComplexModeler

~5 Å
Ligand ~6 Å Emap2lig

~6 Å
Emap2lig logo
Structure Validation Protein ~5 Å DAQ-Score

~5 Å
Structure Refinement Protein ~5 Å DAQ-Refine

~5 Å
Unknown Protein Finding Protein ~5 Å DAQFinder

~5 Å
Secondary Structure Detection Protein 5-10 Å Emap2sec

5-10 Å
Protein-DNA/RNA Complex 5-10 Å Emap2sec+

5-10 Å
Structure Fitting Map vs. Map ~20 Å VESPER

~20 Å
Structure vs. Map ~20 Å VESPER(S2M)

~20 Å



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