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This integration opportunity could be further pursued by solving co-crystal structures of proteins and using these to provide molecular details for interaction networks.
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While BIND was active, the curation team aimed to collect many specific details for interactions and their participants (Table 2), sometimes from additional publications not directly associated with the interaction.
The technique has the advantage of offering fast computational simulations on large networks (< 1 sec for ~100 node networks), can support concepts of co-dependency between components and requires no kinetic details for interactions.
Our studies not only provide molecular details for the interaction between HER2 and PTPN18, but also reveal a novel mechanism of HER2 degradation and function of the PEST domain of PTP superfamily.
The kinetic details for these interactions are not well-known.
Future structure analysis will provide the details for the interactions in the G9 complex.
Residues R91/P92/W93 (RPW) in L6 form an apparently critical tripartite peptidase recognition motif, as recently described in detail for the interaction with cathepsin L [10].
In this case, however, the structural details for the molecular interactions between Cdc37/p50 and Hsp90 are well documented [29].
This has been studied in detail for the interactions of proteins S7, S9, S10, and S3, for which binding of one protein strongly enhances recruitment of a subsequent one ([ 31]and references therein).
In addition, details of interactions may have diverged for paralogous pairs.
Using just seven mutant complexes of finger I [see ref. (Temiz and Camacho, 2009) for details], the interaction code was solved for a seven parameter interaction potential.
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