t.py

string = ""

pdb_ph_dict = {}

with open('./apo_o_cond.txt', 'r') as f:
    for l in f:
        pdb = l.strip().split(' ')[0].split('/')[-1]
        pdb = pdb[:pdb.rfind('.')]
        ph = float(l.strip().split(' ')[-1].strip())
        pdb_ph_dict[pdb] = ph

with open('./AF3_apo_relaxed_cond.txt', 'r') as f:
    for l in f:
        pdb = l.strip().split(' ')[0].split('/')[-1]
        pdb = pdb[:pdb.rfind('.')]
        if pdb in list(pdb_ph_dict):
            string += l.strip().split(' ')[0] + ' ' + str(pdb_ph_dict[pdb]) + '\n'
        else:
            string += l.strip().split(' ')[0] + ' 7.0\n'

with open('./AF3_apo_relaxed_cond_new.txt', 'w') as f:
    f.write(string)