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Catalytic Reaction Mechanism for A + B → A + C: Data Collection Overview

This document summarizes the data collected for the catalytic reaction A + B → A + C, focusing on the mechanisms involved as detailed by Matt Olson in 2010. It includes information on various gates and their functions in the process, with a specific emphasis on reporter, helper, and translator gates. The intricate relationships between the reactants and products, as well as their behavior in the reaction pathway, are outlined with associated sequences provided. The data serves as a framework for understanding the catalytic dynamics at play.

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Catalytic Reaction Mechanism for A + B → A + C: Data Collection Overview

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  1. Data Collection for David GatesCezanne & Taylor

  2. David’s PNAS Catalytic Rxn (A+B->A+C) d4 T d2 B A d1 d4 T d1 T d5m d2 DG1s Fuel-s T T 2 nt clamp, comp to d5 C A d3 d1 d5m T d4 T DG2-AC d3 d3 Rep. Courtesy of Matt Olson, 2010

  3. Courtesy of Matt Olson, 2010 A+B->A+C

  4. 1 2 3 4 5 6 X 7 8 9

  5. Gates for A1 + B1 -> B1 + C2 A1 B1 Backward B Out B Gate B (GB) Helper BC Translator Gate BC (TGBC) C2 B1 Reporter Gate C (RGC)

  6. 1 2 3 4 5 6 7 8 9

  7. Gates for A1 + B1 -> B1 + B2 A1 B1 Backward B Out B Gate B (GB) Helper B Translator Gate B (TGB) B2 B1 Reporter Gate B (RGB)

  8. 1 2 3 4 5 6 7 8 9 10 11

  9. A_1: CACAATACTATCATCAATCCCTCACTCTTCAAACCTCTAACCCTB_1: CATTCAAATCTCACCTTTCCCA CTAACAACTCTCTAC TAACCCAB_2: CCATTCATTCTCTCC TTTCCCA CTAACAACTCTCTAC TAACCCAC_2: CCTTCTTACACCTTC ATACCCTCTCATTCCTCACAAC ATTCCCABackward B: CTAACAACTCTCTACTAACCCAAATCCCTOut B: CACTCTTCAAACCTC TAACCCT CATTCAAATCTCACC TTT Gate_bot B: TGAGGGTTA GAGGTTTGAAGAGTG AGGGATTTGGGTTAGTAGAGAGTTGTTAG TGGGAAAHelper B: CCCACTCCATTCATTCTCTCCTTTCCCA Trans_bot B: AGTGGGAAAGGAGAGAATGAATGGAGTGGGAAAGGTGAGATTTGAATGAGGGTTAHelper BC: CCCACTCCTTCTTACACCTTCATACCCT Trans_bot BC: AG AGGGTATGAAGGTGTAAGAAGGAGTGGGAAAGGTGAGATTTGAATGAGGGTTARep_top B: CTAACAACTCTCTACTAACCCACCCAA/3IAbRQSp/Rep_bot B: /56-ROXN/ TTGGGTGGGTTAGTAGAGAGTTGTTAGTGGGAAARep_top C irr: CTCATTCCTCACAACATTCCCA/3IAbRQSp/Rep_bot C irr: /5TYE563/ TGGGAATGTTGTGAGGAATGAGAGGGTAT

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