The question for 3 pdb '3h3b', '2ghw', '3uzq'

[Wild-Piggggggg]

Hi, thanks for your outstanding contribution!
I noticed that the three files '3h3b', '2ghw', and '3uzq' are not provided in the repository.

Interestingly, I also encountered difficulties handling these three files in my own work.

It would be greatly appreciated if you could share these files or provide some guidance on how to obtain them.

The relevant code reference is in dyAb/data/download.py, line 163.

def download_one_item_local(pdb_dir, item):
    pdb_id = item['pdb']
    if pdb_id in ['3h3b', '2ghw', '3uzq']:
        # these complexes are in RAbD, but their pdb data in SAbDab is wrongly annotated
        file_dir = os.path.split(__file__)[0]
        with open(os.path.join(file_dir, '..', 'summaries', pdb_id + '.pdb'), 'r') as fin:
            item['pdb_data'] = fin.read()
        if pdb_id == '3h3b':
            item['heavy_chain'] = 'D'
            item['light_chain'] = 'E'
            item['antigen_chains'] = ['B']
        elif pdb_id == '2ghw':
            item['heavy_chain'] = 'B'
            item['light_chain'] = 'E'
            item['antigen_chains'] = ['A']
        elif pdb_id == '3uzq':
            item['heavy_chain'] = 'A'
            item['light_chain'] = 'C'
            item['antigen_chains'] = ['B']
        return item

[Wild-Piggggggg]

Oh, sorry — I just found them in another repo. Thanks again for your help!😀