This tool will help you determine the precise residues you wish to conserve when submitting structures to the SPASE Webserver
Residue numbering is not always consistent in literature and for SPASE, numbering will depend on what is defined as residue #1 in your pdb file and whether you have any sequence gaps. The SPASE Webserver considers the first residue in your PDB file to be residue #1 (even if this is not the first residue showing in your structure! Check SEQRES in PDB file). SPASE will perform a clean-up of your structure if we notice truncations, non-standard residues, or other issues with your input file. The final numbering will be representative of this fixed structure. If you are unsure, run SPASE without defining any fixed residues and the server will send you a pack containing the fixed pdb file for your protein. You can then use this as input to determine the appropriate residue numbering. If there are no issues with your pdb file (no truncations, missing loops, nonstandard residues), then the output from this tool should be what you expect.
Once you have the correct residue numbering, please return to the main SPASE Webserver page.