• VaZyMolO

  • Referenced in 1 article [sw16899]
  • identify their function through fold-homology studies. The ‘viral enzyme module localization’ (VaZyMolO) tool ... functional unit. Modules were first identified by homology search and then validated by the convergence...
  • CMASA

  • Referenced in 1 article [sw35231]
  • protein structural similarity and its application to enzyme catalytic site annotation. Results: The evaluation ... only the CMASA can find remote homologous proteins, but also can find the active site ... CMASA was applied to annotate the enzyme catalytic sites of the non-redundant...
  • CRHunter

  • Referenced in 0 articles [sw25090]
  • Delaunay triangulation and Laplacian transformation of enzyme structures. Combining these features with traditional descriptors ... Evaluated on datasets with different levels of homology, our feature predictors achieve relatively stable performance ... template predictors yield poor results when the homological relationships become weak. Nevertheless, the hybrid algorithm ... applied to the predicted structures of enzymes. Compared with state-of-the-art methods, CRHunter...
  • HSEARCH

  • Referenced in 0 articles [sw18391]
  • functions, such as active site of an enzyme. Search and clustering protein sequence motifs ... applies locality-sensitive hashing to fast search homologous protein sequences for a motif. HSEARCH...
  • Prodepth

  • Referenced in 0 articles [sw25085]
  • residues in the folding nucleus, or enzyme active sites from sequence information. In this work ... field of protein structure prediction and homology modeling. This method might prove...
  • Maple

  • Referenced in 5363 articles [sw00545]
  • The result of over 30 years of cutting...
  • Mathematica

  • Referenced in 6337 articles [sw00554]
  • Almost any workflow involves computing results, and that...
  • Matlab

  • Referenced in 13460 articles [sw00558]
  • MATLAB® is a high-level language and interactive...
  • R

  • Referenced in 9810 articles [sw00771]
  • R is a language and environment for statistical...
  • SINGULAR

  • Referenced in 1504 articles [sw00866]
  • SINGULAR is a Computer Algebra system (CAS) for...
  • MACSYMA

  • Referenced in 720 articles [sw01209]
  • Macsyma is a general purpose symbolic-numerical-graphical...
  • LIBSVM

  • Referenced in 1184 articles [sw04879]
  • LIBSVM is a library for Support Vector Machines...
  • CHARMM

  • Referenced in 120 articles [sw05953]
  • CHARMM (Chemistry at HARvard Macromolecular Mechanics). CHARMM models...
  • SciPy

  • Referenced in 753 articles [sw06293]
  • SciPy (pronounced ”Sigh Pie”) is open-source software...
  • AutoDock

  • Referenced in 34 articles [sw09659]
  • AutoDock is a suite of automated docking tools...
  • PyMOL

  • Referenced in 39 articles [sw09662]
  • PyMOL is a powerful and comprehensive molecular visualization...
  • Python

  • Referenced in 2042 articles [sw14460]
  • Python is a widely used high-level, general...
  • LIGPLOT

  • Referenced in 5 articles [sw16869]
  • LIGPLOT: a program to generate schematic diagrams of...
  • PISCES

  • Referenced in 31 articles [sw16873]
  • PISCES: a protein sequence culling server. Summary: PISCES...