If you're experiencing an issue with ipTM metrics not showing values in AlphaFold3 when predicting the structure of a protein, here are some steps to troubleshoot:

1. **Verify Input Data**: Ensure your protein sequence is correctly formatted, as errors can lead to missing metrics.

2. **Change Seed Value**: Try using a different seed value for the prediction, as this can sometimes yield better results.

3. **Check AlphaFold Version**: Make sure you're using the latest version of AlphaFold3, as updates may fix bugs or improve functionality.

4. **Environment Setup**: Confirm that your computational environment is correctly configured and that all necessary dependencies are installed.

5. **Review Documentation**: Look through the AlphaFold3 documentation for any specific notes regarding ipTM metrics or input parameters.

6. **Consult Community Forums**: Engage with forums or platforms like GitHub where other AlphaFold users discuss issues; you may find helpful insights.

7. **Try Refinement Options**: Consider running any available refinement protocols to enhance your model's quality, which might affect ipTM outputs.

8. **Contact Support**: If the issue persists, reach out to AlphaFold support for assistance.

By following these steps, you can identify the reason behind the missing ipTM metrics and take steps to resolve it.

ipTM value is a pTM value for the interface(s) between molecules. Therefore, ipTM does not exist for a single protein.

https://www.ebi.ac.uk/training/online/courses/alphafold/inputs-and-outputs/evaluating-alphafolds-predicted-structures-using-confidence-scores/confidence-scores-in-alphafold-multimer/