Primary Citation PubMed: 14573869
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Accurate prediction of DnaK-peptide binding via homology modelling and experimental data.
(2009) PLoS Comput Biol 5
PubMed: 19696878 | PubMedCentral: PMC2717214 | DOI: 10.1371/journal.pcbi.1000475
Structures of DnaK in complex with a substrate peptide were gathered from an NMR ensemble (PDB code 1Q5L)  and from different crystal structures (PDB codes 1DKX and 1DKY, of which ... he latter is a DnaK dimer with monomers A and B)  .
The MCC of structure 1DKX was the highest as compared to 1DKY (A and B) and was above the MCCs of three randomly picked NMR structures from the ensemble 1Q5L ( Table 1 and Figure 3 ).
Publication Year: 2009
Using steered molecular dynamics to predict and assess Hsp70 substrate-binding domain mutants that alter prion propagation.
(2013) PLoS Comput Biol 9
PubMed: 23382668 | PubMedCentral: PMC3561046 | DOI: 10.1371/journal.pcbi.1002896
Materials and Methods Model construction In this study we used the solution structure of the substrate-binding domain from bacterial Hsp70 chaperone protein DnaK (393–507) in complex with the ... eptide NRLLLTG, obtained from the RCSD protein data bank (PDB code: 1Q5L)  as representing wild type protein.
Publication Year: 2013
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