Primary Citation PubMed: 10508787
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Metric learning for enzyme active-site search.
(2010) Bioinformatics 26
PubMed: 20870642 | PubMedCentral: PMC2958746 | DOI: 10.1093/bioinformatics/btq519
As for the weight values of acidic residues, the templates 1psa (pepsin) and 1qk2 (lysozyme) showed entirely different tendencies ( Supplementary Fig. 4a and b ).
Publication Year: 2010
Discriminative structural approaches for enzyme active-site prediction.
(2011) BMC Bioinformatics 12 Suppl 1
PubMed: 21342581 | PubMedCentral: PMC3044306 | DOI: 10.1186/1471-2105-12-S1-S49
Residues Template log( F pints ) Deviation 1 HIS 57 A, ASP 102 A, GLY 193 A, SER 195 A 1acb –53.37 0.83 2 ASP 137 A, ASP 194 A 1qk2 –14.00 0.66 3 ASP 137 A, ASP 194 A 2bvw –12.... 6 0.69 4 ASP 100 A, ASP 97 A 1qk2 –7.77 0.85 5 ASP 189 A, HIS 172 A 1emh –6.60 1.10 6 ASP 102 A, ASP 97 A 1qk2 –5.18 0.95 7 ASP 239 A, ASP 128 A 1qk2 –5.11 0.95 8 ASP 194 A, ASP 189 A 2bvw –5.08 0.96 9 ASP 97 A, HIS 57 A 1emh –2.79 1.25 10 ASP 61 A, HIS 40 A 1emh –2.62 1.26 Protein structure 1bio is used to generate this example.
Publication Year: 2011
Cellulase linkers are optimized based on domain type and function: insights from sequence analysis, biophysical measurements, and molecular simulation.
(2012) PLoS One 7
PubMed: 23139804 | PubMedCentral: PMC3490864 | DOI: 10.1371/journal.pone.0048615
This motif is was selected based on observed atomic coordinates from the GH6 CD xray structure, PDB id 1qk2  .
Publication Year: 2012
Structural and mechanistic fundamentals for designing of cellulases.
(2012) Comput Struct Biotechnol J 2
PubMed: 24688647 | PubMedCentral: PMC3962180 | DOI: 10.5936/csbj.201209006
Structures were based on the PDB files 7CEL and 1QK2, respectively, and visualized using the software PyMol v0.99 (DeLano Scientific LLC).
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