Homology modeling servers: Difference between revisions
Eric Martz (talk | contribs) |
Eric Martz (talk | contribs) |
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For short untemplated regions (e.g. 1-5 untemplated residues), the untemplated target residues are present in the 3D model, and registration is maintained according to the sequence alignment by bunching up the untemplated residues in the 3D model, allowing the untemplated target residues to bulge away from the template in the 3D model. | For short untemplated regions (e.g. 1-5 untemplated residues), the untemplated target residues are present in the 3D model, and registration is maintained according to the sequence alignment by bunching up the untemplated residues in the 3D model, allowing the untemplated target residues to bulge away from the template in the 3D model. | ||
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<font color="red">Caution:</font> For long untemplated regions (e.g. 87 residues), the untemplated target residues are omitted from the 3D model, effectively ligating** the templated boundary residues together. The omission fails to reveal, in the 3D model, that a large untemplated region exists. | <font color="red">Caution 1:</font> For long untemplated regions (e.g. 87 residues), the untemplated target residues are omitted from the 3D model, effectively ligating** the templated boundary residues together. The omission fails to reveal, in the 3D model, that a large untemplated region exists. | ||
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<font color="red">Caution:</font> Due to errors in the sequence alignment (missing segments of the target sequence*** and numbering errors, see below), further analysis of Phyre2's behavior has been postponed, pending correction of these errors. | <font color="red">Caution 2:</font> Due to errors in the sequence alignment (missing segments of the target sequence*** and numbering errors, see below), further analysis of Phyre2's behavior has been postponed, pending correction of these errors. | ||
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See Caution 2 at left. | |||
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See Caution 2 at left. | |||
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