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Version history

Please click on the version number to activate the corresponding server.

3.2 The current version. An improvement in the alignment algorithm in case of remote homology modeling where a structure dependant gap penalty has been introduced. Also, there are changes in the output format. A summary line has been included to make parsing easier.

3.0 The third version.

Nucleic Acids Res. 2010 Jul;38(Web Server issue):W576-81. Epub 2010 Jun 11. CPHmodels-3.0 - remote homology modeling using structure-guided sequence profiles. Nielsen M, Lundegaard C, Lund O, Petersen TN

CPHmodels 3.0: CPHmodels-3.0. Remote homology modeling using structure guided profile sequence alignment and double-sided baseline corrected scoring scheme.
Morten Nielsen, Claus Lundegaard, Ole Lund, and Thomas Nordahl Petersen
Abstract at the CASP8 conference 2008.

2.0 The second version.

A improved method for fold recognition/homology modeling, in which a large sequence database is iteratively searched to construct a sequence profile until a template can be found in a database of proteins with known structure. Query and template sequences are subsequently aligned using a score based on profile-profile comparisons.

CPHmodels 2.0: X3M a Computer Program to Extract 3D Models.
O. Lund, M. Nielsen, C. Lundegaard, P. Worning
Abstract at the CASP5 conference A102, 2002.

1.0 The first CPHmodels server.

Protein distance constraints predicted by neural networks and probability density functions.
O. Lund, K. Frimand, J. Gorodkin, H. Bohr, J. Bohr, J. Hansen and S. Brunak.
Protein Engineering: 10:1241-1248, 1997.

O. Lund et al., unpublished results.


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