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pdbProteinIDSet - Revision history
2026-05-04T15:26:13Z
Revision history for this page on the wiki
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http://www.yasunaga-lab.bio.kyutech.ac.jp/Eos/index.php?title=pdbProteinIDSet&diff=3172&oldid=prev
Kinoshita: Created page with "'''pdbProteinIDSet''' is Eos's Command that changes Chain ID in PDB file. == List of option == === Main option === <table border="1"> <tr> <th>Option</..."
2014-08-08T02:42:52Z
<p>Created page with "'''pdbProteinIDSet''' is <a href="/Eos/index.php/Eos" title="Eos">Eos</a>'s <a href="/Eos/index.php/Command" title="Command">Command</a> that changes Chain ID in <a href="/Eos/index.php/PDB" title="PDB">PDB</a> file. == List of option == === Main option === <table border="1"> <tr> <th>Option</..."</p>
<p><b>New page</b></p><div>'''pdbProteinIDSet''' is [[Eos]]'s [[Command]] that changes Chain ID in [[PDB]] file.<br />
<br />
<br />
== List of option ==<br />
=== Main option ===<br />
<table border="1"><br />
<tr> <br />
<th>Option</th> <br />
<th>Essential/Optional</th> <br />
<th>Description</th> <br />
<th>Default</th> <br />
</tr> <br />
<tr> <br />
<td>-i</td> <br />
<td>Essential</td> <br />
<td>Input: [[PDB]]</td> <br />
<td>NULL</td> <br />
</tr> <br />
<tr> <br />
<td>-o</td> <br />
<td>Essential</td> <br />
<td>Output: [[PDB]]</td> <br />
<td>NULL</td> <br />
</tr> <br />
<tr> <br />
<td>-ID</td> <br />
<td>Essential</td> <br />
<td>Chain ID</td> <br />
<td>A</td> <br />
</tr> <br />
<tr> <br />
<td>-c</td> <br />
<td>Optional</td> <br />
<td>ConfigurationFile</td> <br />
<td>NULL</td> <br />
</tr> <br />
<tr> <br />
<td>-m</td> <br />
<td>Optional</td> <br />
<td>Mode</td> <br />
<td>0</td> <br />
</tr> <br />
<tr> <br />
<td>-h</td> <br />
<td>Optional</td> <br />
<td>Help</td> <br />
<td> </td> <br />
</tr> <br />
</table> <br />
<br />
=== -m details ===<br />
<table border="1"><br />
<tr> <br />
<th>Value</th> <br />
<th>Description</th> <br />
</tr> <br />
<tr> <br />
<td>0</td> <br />
<td></td> <br />
</tr> <br />
</table> <br />
<br />
<br />
== Execution example ==<br />
===[[:Media:Input-121P.pdb.zip|Input file]] image===<br />
<table> <br />
<tr> <br />
<td>[[File:Input-121P-PDB.png]]</td> <br />
<td><p align="left">Gravity Centre(CA)<br> <br />
Atom far from Centre(CA)<br> <br />
Atom far from Centre(CA, Axis)<br> </p><br />
</td> <br />
<td><p align="left">6.053012e+00 2.519590e+01 1.189075e+01<br> <br />
3.286664e+01 <br> <br />
24.77 23.85 28.04<br></p><br />
</td> <br />
</tr> <br />
</table> <br />
<br><br />
<br />
<div>By Editor</div><br />
<pre><br />
...<br />
<br />
ATOM 1 N MET A 1 -7.176 32.630 -6.655 1.00 14.06 N <br />
ATOM 2 CA MET A 1 -5.913 31.928 -6.676 1.00 17.27 C <br />
ATOM 3 C MET A 1 -5.903 30.860 -5.600 1.00 16.41 C <br />
ATOM 4 O MET A 1 -6.703 30.881 -4.654 1.00 16.12 O <br />
ATOM 5 CB MET A 1 -4.712 32.869 -6.415 1.00 17.94 C <br />
ATOM 6 CG MET A 1 -4.594 33.420 -4.990 1.00 19.41 C <br />
ATOM 7 SD MET A 1 -3.193 34.558 -4.899 1.00 21.82 S <br />
ATOM 8 CE MET A 1 -4.325 35.886 -4.618 1.00 23.68 C <br />
ATOM 9 N THR A 2 -4.966 29.934 -5.760 1.00 15.08 N <br />
ATOM 10 CA THR A 2 -4.759 28.930 -4.751 1.00 16.71 C <br />
<br />
...<br />
</pre><br />
<br />
=== Case: Options only essential ===<br />
====Case: ID=B====<br />
<div>By Editor</div><br />
<pre><br />
...<br />
<br />
ATOM 1 N MET B 1 -7.176 32.630 -6.655 1.00 14.06 0 N <br />
ATOM 2 CA MET B 1 -5.913 31.928 -6.676 1.00 17.27 0 C <br />
ATOM 3 C MET B 1 -5.903 30.860 -5.600 1.00 16.41 0 C <br />
ATOM 4 O MET B 1 -6.703 30.881 -4.654 1.00 16.12 0 O <br />
ATOM 5 CB MET B 1 -4.712 32.869 -6.415 1.00 17.94 0 C <br />
ATOM 6 CG MET B 1 -4.594 33.420 -4.990 1.00 19.41 0 C <br />
ATOM 7 SD MET B 1 -3.193 34.558 -4.899 1.00 21.82 0 S <br />
ATOM 8 CE MET B 1 -4.325 35.886 -4.618 1.00 23.68 0 C <br />
ATOM 9 N THR B 2 -4.966 29.934 -5.760 1.00 15.08 0 N <br />
ATOM 10 CA THR B 2 -4.759 28.930 -4.751 1.00 16.71 0 C <br />
<br />
...<br />
</pre></div>
Kinoshita