I did this activity while we were distance learning so it looked a little different than in the classroom. Our school adopted an A/B block schedule with 33 minute periods so I broke the activity up across a few sessions.
I started by letting students work through the simulation on their own, stopping before the final "Group Discussion." We had done other units so they were familiar with the simulation space. I still did a screencast to walk them through the important features of this particular simulation
When there were done, I asked them to complete a reflection question. I use the Peardeck add on for Google Slides for interactive questioning, but this could easily but done with a Google Form or other questioning application. There are my slides: https://docs.google.com/presentation/d/1tQ5oLH-SoirTD27oEeFF0kf1celJ_RPkY9wY4OMBho0/edit?usp=sharing
The next session I first gave students an answer key to check their responses in the packet and then asked students to work together in small groups to select a final claim, and use supportive evidence and reasoning (pg 6 in the packet). I gave these instructions: https://docs.google.com/presentation/d/12oiFGFP2FpAooZePIsnPZTzM44Ut1YusT6T3uk-p-7s/edit?usp=sharing
While they were working on this part I also provided a set of additional notes with a lot of embedded videos, which I'm happy to share if anyone would like that.
Being at home I was concerned that this wouldn't translate at well as it does working with groups in the classroom, but the students really got the key takeaways and offered up thoughtful questions and discussion. The students felt the simulation was very straightforward and easy to follow.
If we were in the classroom I would have had more room for break ins after each part of the simulation to discuss and make predictions for the upcoming part, but given the situation, I was very pleased with how this helped them understand the ways organisms control protein production and how this fit into the bigger picture of the content we've learned.