MoVIN web server
Pigs (Prediction of Immunoglobulin Structure) is a web-based tool to build the structure of immunoglobulins. Its usage is free for the academic community. The pigs server is flexible and user friendly and relies upon a database of known immunoglobulin structures and of their structural alignment that is regularly updated. The user only needs to input the sequence of the variable chains of the antibody of interest and the program will display a list of putative templates for both the loops and the framework for each chain, together with other useful information. Below you can find more specific help on each section of the pigs web-server.

Sequence Input Page

E-mail
Optional. If provided, we will send you the results (which are displayed online as well) and the link to a page on our server where you can access your results for a week.
Project Name
Optional. Any string that can identify your search results. If you leave it blank, a randomly-generated string will be used
Light/Heavy Sequence
Pigs webserver accept amino acid sequences as input, if you submit nucleic sequence uncorrect results will be generated. Please use some external resource in order to translate nucleic sequences. (e.g. Expasy translation tool)
Cut and paste or type a sequence into the text window. Fasta format is accepted, non-standard characters (including spaces and newlines) will be ignored. Alternatively you can upload your sequences from two separate files. In the case of multiple input sequences in the same file, the file should contain both heavy and light chains in fasta format. The fasta headers should be like this:
>id1 VL
sequence 1 light
...
>id1 VH
sequence 1 heavy
The order of sequences in the file is not influent, it is sufficient that the id is the same for every couple of heavy-light chains.
Blacklisted Templates
Write a comma-separated list of PDB ids (e.g. 1DEE,8FAB,1fve) to explicitly prevent pigs to use them as framework or loops template for both heavy and light chain.
Terms of use
In order to use pigs you have to read and accept the Terms of Use. You need no registration. Pigs is free for non-commercial use.

Template Selection Page

Choice Method
Choose here which of criteria for light/heavy chain template selection you want to use. You can change the selection at any time. The search criteria will be applied only among the possible templates displayed below. The four available criteria are:
Results
Number of results to be displayed. Templates (both in automatic and manual selection modes) are chosen among these results.
Warnings
The server may output different warnings:
Light Chain Template selection
Light Chain Templates are listed here. The number of results displayed depends on the selection in the "result threshold" menu. The list contains the target (first line) and several templates. For each of these the following information is reported:
Heavy Chain Template selection
Heavy Chain Templates are listed here. The number of results displayed depends on the selection in the "result threshold" menu. The list contains the target (first line) and several templates. For each of these the following information is reported:
Side Chain Modeling Method
Different strategies can be selected to model the sidechains of the output model:

Output Page

Download File
Click to download the model generated by pigs
Visualize Model
Click on this button to visualize your model online. This option uses the Jmol applet (http://jmol.sourceforge.net/).
It allows the user to display or hide both heavy and light chains and to higlight each loop (L1, L2, L3, H1, H2 and H3).
Back
Use this button to go Back and change some options (templates, alignments or side-chains modeling strategy) in order to generate a different model.