Download Mmtf Files Demo¶

Example of downloading a list of PDB entries from RCSB

Imports¶

In [9]:

from pyspark import SparkConf, SparkContext
from mmtfPyspark.io import mmtfReader
from mmtfPyspark.structureViewer import view_structure

In [10]:

conf = SparkConf().setMaster("local[*]") \
                      .setAppName("DownloadMMTFFiles")
sc = SparkContext(conf = conf)

In [11]:

pdbIds = ['1AQ1','1B38','1B39','1BUH']

pdb = mmtfReader.download_mmtf_files(pdbIds, sc)

In [12]:

count = pdb.count()

print(f'number of entries downloaded : {count}')

number of entries downloaded : 4

In [13]:

structures = pdb.keys().collect()
view_structure(structures, style = 'line')

Out[13]:

<function mmtfPyspark.structureViewer.view_structure.<locals>.view3d>

In [14]:

sc.stop()