Sandbox Reserved 1849: Difference between revisions

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==Design==

These mini binders, <scene name='10/1075249/Ahb2_fullspikeprotein/1'>AHB2</scene> and <scene name='10/1075249/Lcb1_fullspike_rotating/1'>LCB1</scene>, were designed from “scratch” (de novo) with the intention to mimic the binding of ACE2 to spike protein <ref name="Longxing">PMID:32907861</ref>. Using Rotamer Interaction Field (RIF) docking, the proteins were able to make the most efficient bonding using the ACE2 spike protein binding interface <ref name="Longxing">PMID:32907861</ref>. Using Site Saturation Mutagenesis (SSM), every residue in the minibinder’s helix scaffold will be substituted with each of the 20 amino acids, one at a time <ref name="Valleti">PMID:24970191</ref>. Forming SSM libraries, each of the libraries converged on a small number of closely related sequences, and from these libraries, the design was selected for AHB2 and LCB1 to find the sequence that yields a protein with a high affinity for the spike proteins receptor binding domain <ref name="Longxing">PMID:32907861</ref>.

These mini binders, <scene name='10/1075249/Ahb2_fullspikeprotein/1'>AHB2</scene> and <scene name='10/1075249/Lcb1_fullspike_rotating/1'>LCB1</scene>, were designed from “scratch” (de novo) with the intention to mimic the binding of ACE2 to spike protein <ref name="Longxing">PMID:32907861</ref>. Using Rotamer Interaction Field (RIF) docking, the proteins were able to make the most efficient bonding using the ACE2 spike protein binding interface <ref name="Longxing">PMID:32907861</ref>. Using Site Saturation Mutagenesis (SSM), every residue in the minibinder’s helix scaffold will be substituted with each of the 20 amino acids, one at a time <ref name="Valleti">PMID:24970191</ref>. Forming SSM libraries, each of the libraries converged on a small number of closely related sequences, and from these libraries, the design was selected for AHB2 and LCB1 to find the sequence that yields a protein with a high affinity for the spike proteins receptor binding domain <ref name="Longxing">PMID:32907861</ref>. LCB1 was designed fully from scratch, while AHB2 was designed using ACE2 helix scaffold <ref name="Longxing">PMID:32907861</ref>.

== Implications ==

Sandbox Reserved 1849: Difference between revisions

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@@ Line 41: / Line 41: @@
 ==Design==
-These mini binders, <scene name='10/1075249/Ahb2_fullspikeprotein/1'>AHB2</scene>  and <scene name='10/1075249/Lcb1_fullspike_rotating/1'>LCB1</scene>, were designed from “scratch” (de novo) with the intention to mimic the binding of ACE2 to spike protein <ref name="Longxing">PMID:32907861</ref>. Using Rotamer Interaction Field (RIF) docking, the proteins were able to make the most efficient bonding using the ACE2 spike protein binding interface <ref name="Longxing">PMID:32907861</ref>. Using Site Saturation Mutagenesis (SSM), every residue in the minibinder’s helix scaffold will be substituted with each of the 20 amino acids, one at a time <ref name="Valleti">PMID:24970191</ref>. Forming SSM libraries, each of the libraries converged on a small number of closely related sequences, and from these libraries, the design was selected for AHB2 and LCB1 to find the sequence that yields a protein with a high affinity for the spike proteins receptor binding domain  <ref name="Longxing">PMID:32907861</ref>.
+These mini binders, <scene name='10/1075249/Ahb2_fullspikeprotein/1'>AHB2</scene>  and <scene name='10/1075249/Lcb1_fullspike_rotating/1'>LCB1</scene>, were designed from “scratch” (de novo) with the intention to mimic the binding of ACE2 to spike protein <ref name="Longxing">PMID:32907861</ref>. Using Rotamer Interaction Field (RIF) docking, the proteins were able to make the most efficient bonding using the ACE2 spike protein binding interface <ref name="Longxing">PMID:32907861</ref>. Using Site Saturation Mutagenesis (SSM), every residue in the minibinder’s helix scaffold will be substituted with each of the 20 amino acids, one at a time <ref name="Valleti">PMID:24970191</ref>. Forming SSM libraries, each of the libraries converged on a small number of closely related sequences, and from these libraries, the design was selected for AHB2 and LCB1 to find the sequence that yields a protein with a high affinity for the spike proteins receptor binding domain  <ref name="Longxing">PMID:32907861</ref>. LCB1 was designed fully from scratch, while AHB2 was designed using ACE2 helix scaffold <ref name="Longxing">PMID:32907861</ref>.
 == Implications ==