<span class="Apple-style-span" style="font-family: arial, sans-serif; font-size: 13px; border-collapse: collapse; "><div><span class="Apple-style-span" style="font-family: arial, sans-serif; font-size: 13px; border-collapse: collapse; ">Dear Dr. Terwilliger,</span></div>
<div><span class="Apple-style-span" style="font-family: arial, sans-serif; font-size: 13px; border-collapse: collapse; "><br></span></div><div><span class="Apple-style-span" style="font-family: arial, sans-serif; font-size: 13px; border-collapse: collapse; ">Thanks for your reply. I divided my sequence into two and generated fragment files. These fragment file from Robetta have position numbers (highlighted in yellow) that I think are equivalent to the sequence number. �For the second fragment file, should these numbers be changed to reflect the correct sequence number ? Or can the two fragments files be combined without correcting the position numbers ?</span></div>
<div><span class="Apple-style-span" style="font-family: arial, sans-serif; font-size: 13px; border-collapse: collapse; "><br></span></div><div><span class="Apple-style-span" style="font-family: arial, sans-serif; font-size: 13px; border-collapse: collapse; ">Thanks again</span></div>
<div><span class="Apple-style-span" style="font-family: arial, sans-serif; font-size: 13px; border-collapse: collapse; "><br></span></div><div><span class="Apple-style-span" style="font-family: arial, sans-serif; font-size: 13px; border-collapse: collapse; "><br>
</span></div><div><span class="Apple-style-span" style="font-family: arial, sans-serif; font-size: 13px; border-collapse: collapse; "><div>position: � � � � � <span class="Apple-style-span" style="background-color: rgb(255, 255, 0);">�1 </span>neighbors: � � � � �200</div>
<div><br></div><div>�1uyr A � �25 T L �-80.516 �147.500 �177.258 � -0.178 � �4.758 � �48.053 3 � � 0.000 P �<span class="Apple-style-span" style="background-color: rgb(255, 255, 0);">1</span> F �1</div><div>�1uyr A � �26 Y L �-64.648 �133.444 -172.949 � -0.178 � �4.758 � �48.053 3 � � 0.000 P �<span class="Apple-style-span" style="background-color: rgb(255, 255, 0);">1</span> F �1</div>
<div>�1uyr A � �27 V H �-51.521 �-44.146 -175.896 � -0.178 � �4.758 � �48.053 3 � � 0.000 P �<span class="Apple-style-span" style="background-color: rgb(255, 255, 51);">1</span> F �1</div><div><br></div><div>�1jr7 A � 150 T L �-84.574 �-18.428 -173.610 � -0.326 � �4.504 � �48.213 4 � � 0.000 P �<span class="Apple-style-span" style="background-color: rgb(255, 255, 0);">1</span> F �2</div>
<div>�1jr7 A � 151 Y L -104.837 � 12.859 �175.722 � -0.326 � �4.504 � �48.213 4 � � 0.000 P �<span class="Apple-style-span" style="background-color: rgb(255, 255, 0);">1</span> F �2</div><div>�1jr7 A � 152 V L -128.310 �164.018 -178.953 � -0.326 � �4.504 � �48.213 4 � � 0.000 P �<span class="Apple-style-span" style="background-color: rgb(255, 255, 0);">1</span> F �2</div>
<div><br></div><div>�</div></span></div><div>---------</div>Message: 4<br>Date: Tue, 7 Jun 2011 15:19:06 -0600 (MDT)<br>From: "Thomas C. Terwilliger" <<a href="mailto:terwilliger@lanl.gov" style="color: rgb(0, 0, 204); ">terwilliger@lanl.gov</a>><br>
To: "PHENIX user mailing list" <<a href="mailto:phenixbb@phenix-online.org" style="color: rgb(0, 0, 204); ">phenixbb@phenix-online.org</a>><br>Subject: Re: [phenixbb] Fragment library for mr_rosetta<br>Message-ID: <<a href="mailto:60860.128.165.0.81.1307481546.squirrel@webmail.lanl.gov" style="color: rgb(0, 0, 204); ">60860.128.165.0.81.1307481546.squirrel@webmail.lanl.gov</a>><br>
Content-Type: text/plain;charset=iso-8859-1<br><br>Hi Doreen,<br><br>Yes, that should work fine...just paste the resulting files together after<br>deleting the header on all but the first (the files are just a list of<br>
fragments)<br><br>All the best,<br>Tom T<br><br>>> Hi Everyone,<br>>><br>>><br>>> I am trying to generate a fragment library for my sequence of interest to<br>>> use with mr_rosetta. The Robetta server has a sequence limit of 650 amino<br>
>> acids. For longer sequence, will it make sense to divide the sequence into<br>>> 650 amino acid fragments and generate multiple fragment files ?<br>>> Thanks<br>>><br>>><br>>> Thanks<br>
>> _______________________________________________<br>>> phenixbb mailing list<br>>>�<a href="mailto:phenixbb@phenix-online.org" style="color: rgb(0, 0, 204); ">phenixbb@phenix-online.org</a><br>>>�<a href="http://phenix-online.org/mailman/listinfo/phenixbb" target="_blank" style="color: rgb(0, 0, 204); ">http://phenix-online.org/mailman/listinfo/phenixbb</a><br>
>></span><br><br><div class="gmail_quote">On Tue, Jun 7, 2011 at 4:48 PM, riya doreen <span dir="ltr"><<a href="mailto:driya28@gmail.com">driya28@gmail.com</a>></span> wrote:<br><blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex;">
Hi Everyone,<div><br></div><div><br></div><div>I am trying to generate a fragment library for my sequence of interest to use with mr_rosetta. The Robetta server has a sequence limit of 650 amino acids. For longer sequence, will it make sense to divide the sequence into 650 amino acid fragments and generate multiple fragment files ?</div>
<div>Thanks</div><div><br></div><div><br>Thanks</div>
</blockquote></div><br>