<html><body><div style="color:#000; background-color:#fff; font-family:HelveticaNeue-Light, Helvetica Neue Light, Helvetica Neue, Helvetica, Arial, Lucida Grande, sans-serif;font-size:16px"><div id="yui_3_16_0_1_1414173957104_3296" dir="ltr">Hi All,</div><div id="yui_3_16_0_1_1414173957104_3297" dir="ltr">I'm having a hard time using and understanding biopython pdb.</div><div id="yui_3_16_0_1_1414173957104_3298" dir="ltr">./read_pdb_file.py 3OE6.pdb</div><div id="yui_3_16_0_1_1414173957104_3299" dir="ltr"><br></div><div id="yui_3_16_0_1_1414173957104_3300" dir="ltr">I'm attaching python script, pdb file, fasta file and output with mail.</div><div id="yui_3_16_0_1_1414173957104_3301" dir="ltr">I'have following doubts:</div><div id="yui_3_16_0_1_1414173957104_3302" dir="ltr">- When I print the sequence I get in broken pieces. Why?</div><div id="yui_3_16_0_1_1414173957104_3303" dir="ltr">- Also the sequence printed doesn't match with the fasta file (attached).</div><div id="yui_3_16_0_1_1414173957104_3304" dir="ltr">- Am I doing making a silly mistake?</div><div id="yui_3_16_0_1_1414173957104_3305" dir="ltr"><br></div><div id="yui_3_16_0_1_1414173957104_3306" dir="ltr">I am running script as:<br></div><div id="yui_3_16_0_1_1414173957104_3307" dir="ltr">python read_pdb_file.py 3OE6.pdb </div><div id="yui_3_16_0_1_1414173957104_3446" dir="ltr"><br></div><div id="yui_3_16_0_1_1414173957104_3447" dir="ltr">Kindly help and guide.<br></div><div id="yui_3_16_0_1_1414173957104_3308" style="" class="" dir="ltr"><br style="" class=""></div></div></body></html>