In this case you know the protein is closely relaed to whatefer contaminer found, and you have good sequence data, so I agree the next step is blast. Maybe it is an isozyme of the structure used.
In cases where you solve an unknown by heavy atom derivatives and have no idea what it is; and the resolution is too low to get a good read on the sequence, but you can trace the chain; the DALI server is the way to go. That is how we identified 4HEI. On 12/14/2017 07:08 AM, Jiyong Su wrote:
Dear CCP4bb, In 2014, I collected a high quality data set from a crystal. But I could not solve the structure of that crystal because this protein is a contaminate. Recently, I used StruBE's Contaminer and fortunately got the solution. Thanks ContaMiner!!! This protein is a contaminate protein. However, I found this protein is an unknown protein (about 180 residues) whose amino acid sequence is not totally same as E.coli. There are about 20 point mutation sites comparing to the E.coli protein. This means this protein may be from an unknown bacteria. The space group of this crystal is new. There is also a new ligand in this protein. My question is how could I found the primary structure of this protein and how to deposit this protein in PDB. Best regards, Jiyong
