Hi Othman<br> I have been using pdb coordinates of any atom in pdb-file as with respect to origin (0,0,0) ie., origin is not explicitly looked for in the pdb-file. Once this system is established, you can apply your own rotation/translation matrices to each coordinate.
<br><br>With Regards<br>Kalidas.Y<br><br><div><span class="gmail_quote">On 4/11/06, <b class="gmail_sendername">Fazilah Othman</b> <<a href="mailto:fazot@cs.usm.my">fazot@cs.usm.my</a>> wrote:</span><blockquote class="gmail_quote" style="border-left: 1px solid rgb(204, 204, 204); margin: 0pt 0pt 0pt 0.8ex; padding-left: 1ex;">
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<p><font color="navy" face="Verdana" size="2"><span style="font-size: 10pt; font-family: Verdana; color: navy;">Hi</span></font><font face="Verdana" size="2"><span style="font-size: 10pt; font-family: Verdana;"> all<font color="navy">
<span style="color: navy;">,</span></font></span></font></p>
<p><font face="Verdana" size="2"><span style="font-size: 10pt; font-family: Verdana;"> </span></font></p>
<p><font face="Verdana" size="2"><span style="font-size: 10pt; font-family: Verdana;">How to find the<b><span style="font-weight: bold;"> origin</span></b>
and <b><span style="font-weight: bold;">3 orthogonal vectors</span></b> for
coordinate system (or reference system) used in any PDB data? I have gone thru
PDB format descriptions (esp<font color="navy"><span style="color: navy;">.</span></font>
in crystallographic and coordinate transformation section), but still getting
out of no where. I think the info is there, but I cannot understand or digest
it correctly. I cannot find anybody familiar with PDB here in my institution.
Please help.</span></font></p>
<p><font face="Verdana" size="2"><span style="font-size: 10pt; font-family: Verdana;"> </span></font></p>
<p><font face="Verdana" size="2"><span style="font-size: 10pt; font-family: Verdana;">p/s:I want to try locating the same point in 2 different
coordinate systems (name it csA and csB). csA is the coordinate system from the
PDB file (that is what I am trying to find out) and csB is the coordinate
system created by me (I have the origin and 3 orthogonal vectors).</span></font></p>
<p><font color="navy" face="Verdana" size="2"><span style="font-size: 10pt; font-family: Verdana; color: navy;"> </span></font></p>
<p><font face="Verdana" size="2"><span style="font-size: 10pt; font-family: Verdana;">Thanks.</span></font></p>
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<p><em><i><font color="olive" face="Tahoma" size="2"><span style="font-size: 10pt; font-family: Tahoma; color: olive;">______________________________</span></font></i></em></p>
<p><em><i><font color="#cc3399" face="Arial Rounded MT Bold" size="2"><span style="font-size: 10pt; color: rgb(204, 51, 153);">-Fazot-</span></font></i></em></p>
<p><font face="Times New Roman" size="3"><span style="font-size: 12pt;"> </span></font></p>
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<p><font color="black" face="Verdana" size="3"><span style="font-size: 12pt; font-family: Verdana; color: black;"> </span></font></p>
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<br><br></blockquote></div><br><br clear="all"><br>-- <br>Kalidas Y<br><a href="http://ssl.serc.iisc.ernet.in/~kalidas">http://ssl.serc.iisc.ernet.in/~kalidas</a>