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Description:

TM-align is a computer algorithm for protein structure alignment using dynamic programming and TM-score rotation matrix. An optimal alignment between two proteins, as well as the TM-score, will be reported for each comparison. The value of TM-score lies in (0,1]. In general, a comparison of TM-score smaller 0.2 indicates that there is no similarity between two structures; a TM-score greater 0.5 means the structures share the same fold. What is the difference between TM-score and TM-align? The TM-score program is to compare two models based on their given and known residue equivalency. It is usually NOT applied to compare two proteins of different sequences. The TM-align is a structural alignment program for comparing two proteins whose sequences can be different. The TM-align will first find the best equivalent residues of two proteins based on the structure similarity and then output a TM-score. The TM-score values in both programs have the same definition.

Homepage:

https://zhanggroup.org/TM-align/

License:

tm-align

Versions

Metadata

Description

• TM-align is a computer algorithm for protein structure alignment using dynamic programming and TM-score rotation matrix. An optimal alignment between two proteins, as well as the TM-score, will be reported for each comparison. The value of TM-score lies in (0,1]. In general, a comparison of TM-score smaller 0.2 indicates that there is no similarity between two structures; a TM-score greater 0.5 means the structures share the same fold. What is the difference between TM-score and TM-align? The TM-score program is to compare two models based on their given and known residue equivalency. It is usually NOT applied to compare two proteins of different sequences. The TM-align is a structural alignment program for comparing two proteins whose sequences can be different. The TM-align will first find the best equivalent residues of two proteins based on the structure similarity and then output a TM-score. The TM-score values in both programs have the same definition.

Maintainers

• Gentoo Chemistry Project (sci-chemistry@gentoo.org) - Type: project

<pkgmetadata>
	<maintainer type="project">
		<email>sci-chemistry@gentoo.org</email>
		<name>Gentoo Chemistry Project</name>
	</maintainer>
	<longdescription>
  TM-align is a computer algorithm for protein structure alignment using dynamic
  programming and TM-score rotation matrix. An optimal alignment between two
  proteins, as well as the TM-score, will be reported for each comparison. The
  value of TM-score lies in (0,1]. In general, a comparison of TM-score smaller
  0.2 indicates that there is no similarity between two structures; a TM-score
  greater 0.5 means the structures share the same fold.

  What is the difference between TM-score and TM-align? The TM-score program
  is to compare two models based on their given and known residue equivalency.
  It is usually NOT applied to compare two proteins of different sequences. The
  TM-align is a structural alignment program for comparing two proteins whose
  sequences can be different. The TM-align will first find the best equivalent
  residues of two proteins based on the structure similarity and then output a
  TM-score. The TM-score values in both programs have the same definition.
  </longdescription>
</pkgmetadata>

Lint Warnings

• [Warning] Ebuild 20150914-r1 uses IUSE flag 'custom-cflags' which is not documented in metadata.xml. Add the flag to metadata.xml <use> section.
• [Warning] Missing md5-cache for version 20150914-r1. Run 'ebuild <ebuild_file> manifest' or 'egencache' to generate it.

USE Flags

Files

• CMakeLists.txt

Manifest