Zhanglab forum

Hi BioLip team,

I hope you are doing well !!

I wish to ask one question with regards to interpretation on Column 8, 9 and 21. I have previously discussed with lots of folk from BioLip team, however, I was re-reading BioLip readme and forum pages and I just wish to ask one question which would help me take one big step further.

Since, I know the Column 8 has insertion code and gaps and possible negative values. I understood that you guys have run a sophisticated code to develop column 9 which solves all this problem. Can I say with confidence that:

I do not need to handle insertion codes or PDB gaps. The "Renumbering" process (in Column 9) removed them for me.

My Code Logic now:
>> Read Column 21: This is your dense array seq.
>> Read Column 9: These are your 1-based pointers.
>> Operation:

• Extract Number N from Column 9.
  Index = N - 1
  seq[Index] is the binding residue

Is this the correct use between column 9 and 21 ?

Thanks for everything and have a great day ahead.

Dear user,
You're mostly correct. For more information, please refer to the email I previously sent you.
Best wishes,
Hao