Documentation

Missense3D server is freely available to the scientific community.

How to use Missense3D

Medical Disclaimer

Missense3D is intended for purely research purposes. It should not be used for medical or professional advice or any clinical decision making.

Service Disclaimer

This service is available AS IS and at your own risk. Imperial College does not give any representation or warranty nor assume any liability or responsibility for the service or the results posted (whether as to their accuracy, completeness, quality or otherwise).

Use of the web site is at your own risk and no liability is accepted for any loss or damage arising through use of the web site and e-mail's howsoever arising. Without limitation, we cannot and do not guarantee that the web site, e-mails and any attachments are free of viruses and such like. You are therefore recommended to take all appropriate safeguards before downloading information etc.

Access to the service is available free of charge. If Imperial College considers that any user, whether an individual, host institution or project, is making excessive use of the service, Imperial College reserves the right to withdraw the service or make access subject to such terms of use, including payment, as it may decide.

Input (please note that all fields are mandatory)

1. Type the PDB coordinate on the file of interest e.g. 2fos or upload a 3D coordinate file, either by specifying a PDB code or by providing your own 3D coordinate set.

2. Specify the residue number. Warning: sequence numbering in PDB files may not correspond to that reported in UniProt (e.g. Residue Cys 56 in the Alpha-galactosidase protein (UniProt ID: P06280) corresponds to Cys 52 in PDB file 3hg3.pdb).

3. Specify the chain identifier in your 3D coordinate file. Warning: several 3D prediction servers like our in house Phyre2 do not add a chain identifier in the 3D coordinate file of the model. If your 3D coordinate file does not have a chain id, plese put a dash symbol "-" in this field.

4. Specify the wild type residue and its substitution.

5. Press SUBMIT button

6. If you have uploaded the wrong 3D coordinate file or simply want to reset the whole page, press the RESET button

Output

The output from Missense3D is generally produced within 3 minutes. A link to the result page will become available once the job is finished. The link will take you to a concise report of the structural changes identified by Missense3D. All results can be downloaded as a zip file from this page. Please note your results will be deleted from our server after 24-hours. Therefore please download the zip file if you want to save your results.

The “View Details” link will take you to a more detailed page (all results can also be download as a zip file from this page)