sc-PDB
An Annotated Database of Druggable Binding Sites from the Protein DataBank
An Annotated Database of Druggable Binding Sites from the Protein DataBank
Binding Modes are compared using Grim.
For more information, please see the following publication:
Desaphy J. et al. Encoding Protein-Ligand Interaction Patterns in Fingerprints and Graphs J. Chem. Inf. Model., 2013, 53 (3), pp 623-637
Binding modes are considered as similar when the similarity value is greater than 0.65
| PDB ID | HET | Uniprot Name | EC Number |
|---|---|---|---|
| 4qx5 | CMP | cGMP-dependent protein kinase 1 | 2.7.11.12 |
| PDB ID | HET | Uniprot Name | EC Number | Binding Mode Similarity |
Align |
|---|---|---|---|---|---|
| 4qx5 | CMP | cGMP-dependent protein kinase 1 | 2.7.11.12 | 0.987 | |
| 4ku7 | PCG | cGMP-dependent protein kinase 1 | 2.7.11.12 | 0.921 | |
| 2ptm | CMP | Hyperpolarization-activated (Ih) channel | / | 0.874 | |
| 1vp6 | CMP | Cyclic nucleotide-gated potassium channel mll3241 | / | 0.842 | |
| 4hbn | CMP | Potassium/sodium hyperpolarization-activated cyclic nucleotide-gated channel 4 | / | 0.842 | |
| 4hzf | CMP | cAMP-activated global transcriptional regulator CRP | / | 0.840 | |
| 4i02 | CMP | cAMP-activated global transcriptional regulator CRP | / | 0.835 | |
| 2cgp | CMP | cAMP-activated global transcriptional regulator CRP | / | 0.826 | |
| 3u0z | CMP | Potassium/sodium hyperpolarization-activated cyclic nucleotide-gated channel 1 | / | 0.816 | |
| 1cx4 | CMP | cAMP-dependent protein kinase type II-beta regulatory subunit | / | 0.814 | |
| 1q3e | PCG | Potassium/sodium hyperpolarization-activated cyclic nucleotide-gated channel 2 | / | 0.813 | |
| 3u10 | CMP | Potassium/sodium hyperpolarization-activated cyclic nucleotide-gated channel 2 | / | 0.809 | |
| 4d7t | CMP | Uncharacterized protein | / | 0.809 | |
| 1rgs | CMP | cAMP-dependent protein kinase type I-alpha regulatory subunit | / | 0.806 | |
| 3rou | CMP | cAMP-activated global transcriptional regulator CRP | / | 0.806 | |
| 3ocp | CMP | cGMP-dependent protein kinase 1 | 2.7.11.12 | 0.803 | |
| 3u11 | CMP | Potassium/sodium hyperpolarization-activated cyclic nucleotide-gated channel 4 | / | 0.798 | |
| 3cl1 | PCG | Cyclic nucleotide-gated potassium channel mll3241 | / | 0.797 | |
| 3bpz | CMP | Potassium/sodium hyperpolarization-activated cyclic nucleotide-gated channel 2 | / | 0.795 | |
| 3od0 | PCG | cGMP-dependent protein kinase 1 | 2.7.11.12 | 0.795 | |
| 1q5o | CMP | Potassium/sodium hyperpolarization-activated cyclic nucleotide-gated channel 2 | / | 0.793 | |
| 4ft8 | CMP | cAMP-activated global transcriptional regulator CRP | / | 0.791 | |
| 3otf | CMP | Potassium/sodium hyperpolarization-activated cyclic nucleotide-gated channel 4 | / | 0.790 | |
| 3ryp | CMP | cAMP-activated global transcriptional regulator CRP | / | 0.789 | |
| 4i09 | CMP | cAMP-activated global transcriptional regulator CRP | / | 0.788 | |
| 1ne6 | SP1 | cAMP-dependent protein kinase type I-alpha regulatory subunit | / | 0.783 | |
| 1q43 | CMP | Potassium/sodium hyperpolarization-activated cyclic nucleotide-gated channel 2 | / | 0.781 | |
| 1ne4 | RP1 | cAMP-dependent protein kinase type I-alpha regulatory subunit | / | 0.778 | |
| 2oz6 | CMP | Cyclic AMP receptor-like protein | / | 0.776 | |
| 4jv4 | 1OR | cAMP-dependent protein kinase type I-alpha regulatory subunit | / | 0.776 | |
| 1i6x | CMP | cAMP-activated global transcriptional regulator CRP | / | 0.772 | |
| 3n4m | CMP | cAMP-activated global transcriptional regulator CRP | / | 0.771 | |
| 3of1 | CMP | cAMP-dependent protein kinase regulatory subunit | / | 0.769 | |
| 3qop | CMP | cAMP-activated global transcriptional regulator CRP | / | 0.767 | |
| 3shr | CMP | cGMP-dependent protein kinase 1 | 2.7.11.12 | 0.766 | |
| 1g6n | CMP | cAMP-activated global transcriptional regulator CRP | / | 0.762 | |
| 2k0g | CMP | Cyclic nucleotide-gated potassium channel mll3241 | / | 0.755 | |
| 4ev0 | CMP | Cyclic AMP receptor protein | / | 0.755 | |
| 5c6c | CMP | cGMP-dependent protein kinase 2 | 2.7.11.12 | 0.750 | |
| 1hw5 | CMP | cAMP-activated global transcriptional regulator CRP | / | 0.749 | |
| 3rdi | CMP | cAMP-activated global transcriptional regulator CRP | / | 0.747 | |
| 4i01 | CMP | cAMP-activated global transcriptional regulator CRP | / | 0.746 | |
| 3ogj | CMP | cGMP-dependent protein kinase 1 | 2.7.11.12 | 0.745 | |
| 4i0b | CMP | cAMP-activated global transcriptional regulator CRP | / | 0.741 | |
| 4mgk | CMP | Rap guanine nucleotide exchange factor 4 | / | 0.738 | |
| 3ryr | CMP | cAMP-activated global transcriptional regulator CRP | / | 0.737 | |
| 3r6s | CMP | CRP-like cAMP-activated global transcriptional regulator | / | 0.732 | |
| 4d7s | PCG | Uncharacterized protein | / | 0.732 | |
| 5c8w | PCG | cGMP-dependent protein kinase 2 | 2.7.11.12 | 0.732 | |
| 4r8h | SP1 | cAMP-activated global transcriptional regulator CRP | / | 0.730 | |
| 1i5z | CMP | cAMP-activated global transcriptional regulator CRP | / | 0.726 | |
| 3kcc | CMP | cAMP-activated global transcriptional regulator CRP | / | 0.726 | |
| 1zrd | CMP | cAMP-activated global transcriptional regulator CRP | / | 0.725 | |
| 4z07 | PCG | cGMP-dependent protein kinase 1 | 2.7.11.12 | 0.725 | |
| 3plq | RP2 | cAMP-dependent protein kinase type I-alpha regulatory subunit | / | 0.724 | |
| 3rpq | CMP | cAMP-activated global transcriptional regulator CRP | / | 0.716 | |
| 4i0a | CMP | cAMP-activated global transcriptional regulator CRP | / | 0.716 | |
| 3i59 | N6R | CRP-like cAMP-activated global transcriptional regulator | / | 0.711 | |
| 4jva | 1OR | cAMP-dependent protein kinase type II-beta regulatory subunit | / | 0.710 | |
| 4mgi | CMP | Rap guanine nucleotide exchange factor 4 | / | 0.708 | |
| 4n9i | PCG | Catabolite expression activator | / | 0.698 | |
| 3mzh | CMP | CRP-like cAMP-activated global transcriptional regulator | / | 0.687 | |
| 1rl3 | PCG | cAMP-dependent protein kinase type I-alpha regulatory subunit | / | 0.685 | |
| 3i59 | N6S | CRP-like cAMP-activated global transcriptional regulator | / | 0.679 | |
| 4kg1 | PCG | Diguanylate cyclase | / | 0.679 | |
| 1cgp | CMP | cAMP-activated global transcriptional regulator CRP | / | 0.667 | |
| 1zrc | CMP | cAMP-activated global transcriptional regulator CRP | / | 0.660 | |
| 2gzw | CMP | cAMP-activated global transcriptional regulator CRP | / | 0.659 | |
| 1nhk | CMP | Nucleoside diphosphate kinase | 2.7.4.6 | 0.657 |