I'm interested about a monoclonal antibody Rituximab, I've found pdb structure of Fc and Fab regions of this. Is there any too/method that I can use to append these and get the full pdb structure?
Fc fragment: 1L6X
Fab fragment: 2OSL
There are only a few full-length antibody structures in the PDB, the hinge flexibility hampers crystallization: 1IGY, 1IGT, 1HZX, 5DK3, 1MCO (only half in au, hinge deletion). You find them by blast-searching the PDB for full heavy chain sequences and restricting the search results for chains long enough to contain all four domains, then screen the hits in a viewer for false positives (e.g. low res, Calpha only models: 2ESG, 3CM9, 1R70, 1IGA, 1ZVO, 3CHN, 2QTJ).
Take the one whose hinge characteristics are closest to the antibody you want to model, replace the Fab domains by your Fab (least squares superposition of CH1), replace the FC fragment by your FC fragment (least squares superposition of the two CH2 domains), tidy up the hinge( disulfide bonds!).
Since you got both regions from PDB and the hinge region could be found at the files shown by Honegger, you may use any homology modeling tool (such as modeller) to create a full protein based on these tridimensional structures and the amino-acid sequence of your antibody.
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