GalaxyHeteromer: Protein heterodimer structure prediction by template-based and ab initio docking

Taeyong Park, Jonghun Won, Minkyung Baek, and Chaok Seok

Seoul National University

Databases

The databases used for template-based docking of GalaxyHeteromer, DB-Mo, DB-Ho, and DB-Het, can be downloaded below. In each file, PDB IDs and chains of the proteins composing the databases are listed. In the case of DB-Ho, the trans-rotational matrices for building homo-oligomers from each chain structure is also provided.
DB-Ho example 
1A0F_A;0;2 (PDBID_chain;n_th biological assembly;n_mer)
0; 0.000 0.000 0.000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000
1; 53.491 23.006 114.623 -0.742055 -0.670249 0.010990 -0.670159 0.741377 -0.035314 0.015522 -0.033570 -0.999316
In the above case, the two sets of nine numbers represent the elements of the trans-rotational matrices to be applied to 1A0F_A to form a homodimer structure.

Model structures generated for the benchmark sets

Model structures generated for benchmark tests and per-model accuracy metrics can be downloaded below. The databases updated at 2020/05/12 were used for the benchmark tests.

Download

Reference

  1. Park T, Won J, Baek M, and Seok C. GalaxyHeteromer: Protein heterodimer structure prediction by template-based and ab initio docking, submitted

Contact

[email protected]