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Table 1 Crystallographic protein-DNA complexes (designated by PDB id) with matching experimental binding free energies extracted from ProNIT database

From: Protein-DNA docking with a coarse-grained force field

PDB

Chains

ΔG/kcal mol−1

1AAY

A/BC

−11.5[26]

1AZ0

AB/CD

−17.4[27]

1B72

AB/DE

−9.0[28]

1BHM

AB/CD

−11.7[29]

1CEZ

A/TN

−10.8[30]

1CMA

AB/CD

−5.4[31]

1D02

AB/CD

−8.1[32]

1ECR

A/BC

−15.6[33]

1IHF

AB/CD

−10.3[34, 35]

1PUE

E/AB

−9.7[36]

1QRV

A/CD

−7.4[37, 38]

1YSA

CD/AB

−9.5[39]

1PUF

A/DE

−9.2[28]

1TRO

AC/IJ

−12.6[40–42]

1UBD

C/AB

−8.5[43]