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Hi,</div>
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I have been trying to properly code the align command. I would like to use the command to determine the RMSD value between corresponding sections of two highly homologous proteins. Here are the details:</div>
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Model 1 is to be aligned to Model 2; each model only has one chain</div>
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Model 1 positions (residues=amino acids) 11-323</div>
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Model 2 positions ( residues=amino acids) 24-336</div>
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When I pair each of the amino acids that are being aligned, everyone of the pairs has the same number of atoms.</div>
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Here is what I thought would work:</div>
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align #1:11-323 to_atoms #2:24-336</div>
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Here is the error message:</div>
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Unequal number of atoms to pair, 2483 to 2371</div>
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I am still trying to understand the nomenclature for understanding residues and atoms.</div>
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Thanks for any help you can provide.</div>
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<div style="font-family: Calibri, Arial, Helvetica, sans-serif; font-size: 12pt; color: rgb(0, 0, 0);" class="elementToProof">
Phil McClean</div>
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