Examples
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Example of AD-ENM: myosin
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In this example, we study the conformational changes in dicty myosin from the transition state (PDB code: 1VOM) to the near-rigor
state (PDB code: 1MMA), where the local structural deformation occurs at the nucleotide-binding pocket.
For Option 1, upload the following two PDB files as input:
The first PDB file is 1VOM.
The second PDB file is 1MMA.
For results click here.
For Option 2, upload the following two PDB files as input:
The first PDB file is 1VOM.
The second PDB file is new pocket conformation.
For results click here.
For Option 3, upload the following two PDB files as input:
The first PDB file is 1VOM.
The second PDB file is pocket residues.
For results click here.
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Example of DC-ENM
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In this example, we are given the 1st PDB structure 1OMP and a data file with 2 DCs, and we wish to model a new structure that satisfies the given DCs. You can submit the above two files here, together with the 2nd PDB structure 1ANF which is the native structure we try to model. DC-ENM will then generate a structural model and compare it with the 2nd PDB structure.
The results of running DC-ENM with the above example are shown here.
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Example of PATH-ENM
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In this example, we wish to map the transition path from the 1st PDB structure 1VOM to the 2nd PDB structure 1MMA. You can submit the above two files here. PATH-ENM will then generate two transition paths (SD path and SP path).
The results of running PATH-ENM with the above example are shown here.
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If you find results from the AD-ENM server useful, please cite our papers.
 Department of Health and Human Services
 National Institutes of Health
 National Heart, Lung, and Blood Institute
Accessibility Information
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