?Hi Lei,
Rosetta uses something very similar to this for designing proteins that bind to ligands/proteins. Perhaps look there. Best wishes, Reza Reza Khayat, PhD Assistant Professor City College of New York Department of Chemistry New York, NY 10031 ________________________________ From: CCP4 bulletin board <[email protected]> on behalf of Zheng, Lei <[email protected]> Sent: Wednesday, January 8, 2020 10:57 AM To: [email protected] Subject: [EXTERNAL] [ccp4bb] Searching similar local structural conformations Dear CCP4ers, We identify a potential ion binding site formed by four residues in a structure. I want to search if any other structures have a similar local residual geometry. Is there any programs to perform such a searching? For example, to search in Protein Data Bank using coordinates of the binding site residues? I appreciate your suggestions. Happy New Year! Lei ________________________________ To unsubscribe from the CCP4BB list, click the following link: https://www.jiscmail.ac.uk/cgi-bin/webadmin?SUBED1=CCP4BB&A=1<https://urldefense.proofpoint.com/v2/url?u=https-3A__www.jiscmail.ac.uk_cgi-2Dbin_webadmin-3FSUBED1-3DCCP4BB-26A-3D1&d=DwMGaQ&c=4NmamNZG3KTnUCoC6InoLJ6KV1tbVKrkZXHRwtIMGmo&r=1DzJFW0v6TgEhkW1gy_-ke-RbtvS1fzEbD5_hcb9Up0&m=gQ74N9pnW9RznPL8f9J0N102jWbyShExxG71cIvDGjw&s=Jh2_5d7KMooSxduWVvAZneHLUiH3AE5X_u2kp4tLU4I&e=> ######################################################################## To unsubscribe from the CCP4BB list, click the following link: https://www.jiscmail.ac.uk/cgi-bin/webadmin?SUBED1=CCP4BB&A=1
