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 |
|---|---|---|---|
| 2ptm | CMP | Hyperpolarization-activated (Ih) channel |
| PDB ID | HET | Uniprot Name | EC Number | Binding Mode Similarity |
Align |
|---|---|---|---|---|---|
| 2ptm | CMP | Hyperpolarization-activated (Ih) channel | / | 0.970 | |
| 4qx5 | CMP | cGMP-dependent protein kinase 1 | 2.7.11.12 | 0.874 | |
| 4hbn | CMP | Potassium/sodium hyperpolarization-activated cyclic nucleotide-gated channel 4 | / | 0.843 | |
| 1vp6 | CMP | Cyclic nucleotide-gated potassium channel mll3241 | / | 0.835 | |
| 4ku7 | PCG | cGMP-dependent protein kinase 1 | 2.7.11.12 | 0.829 | |
| 4i0b | CMP | cAMP-activated global transcriptional regulator CRP | / | 0.814 | |
| 3ocp | CMP | cGMP-dependent protein kinase 1 | 2.7.11.12 | 0.813 | |
| 3u11 | CMP | Potassium/sodium hyperpolarization-activated cyclic nucleotide-gated channel 4 | / | 0.806 | |
| 2cgp | CMP | cAMP-activated global transcriptional regulator CRP | / | 0.805 | |
| 1rgs | CMP | cAMP-dependent protein kinase type I-alpha regulatory subunit | / | 0.794 | |
| 3u0z | CMP | Potassium/sodium hyperpolarization-activated cyclic nucleotide-gated channel 1 | / | 0.793 | |
| 4i02 | CMP | cAMP-activated global transcriptional regulator CRP | / | 0.791 | |
| 4z07 | PCG | cGMP-dependent protein kinase 1 | 2.7.11.12 | 0.791 | |
| 3bpz | CMP | Potassium/sodium hyperpolarization-activated cyclic nucleotide-gated channel 2 | / | 0.790 | |
| 3ogj | CMP | cGMP-dependent protein kinase 1 | 2.7.11.12 | 0.789 | |
| 2oz6 | CMP | Cyclic AMP receptor-like protein | / | 0.788 | |
| 4d7s | PCG | Uncharacterized protein | / | 0.787 | |
| 4d7t | CMP | Uncharacterized protein | / | 0.786 | |
| 4jv4 | 1OR | cAMP-dependent protein kinase type I-alpha regulatory subunit | / | 0.785 | |
| 1hw5 | CMP | cAMP-activated global transcriptional regulator CRP | / | 0.784 | |
| 1q43 | CMP | Potassium/sodium hyperpolarization-activated cyclic nucleotide-gated channel 2 | / | 0.782 | |
| 3ryp | CMP | cAMP-activated global transcriptional regulator CRP | / | 0.780 | |
| 4jva | 1OR | cAMP-dependent protein kinase type II-beta regulatory subunit | / | 0.776 | |
| 1cx4 | CMP | cAMP-dependent protein kinase type II-beta regulatory subunit | / | 0.775 | |
| 1q5o | CMP | Potassium/sodium hyperpolarization-activated cyclic nucleotide-gated channel 2 | / | 0.774 | |
| 3cl1 | PCG | Cyclic nucleotide-gated potassium channel mll3241 | / | 0.770 | |
| 1i6x | CMP | cAMP-activated global transcriptional regulator CRP | / | 0.769 | |
| 3ryr | CMP | cAMP-activated global transcriptional regulator CRP | / | 0.769 | |
| 4ft8 | CMP | cAMP-activated global transcriptional regulator CRP | / | 0.767 | |
| 4hzf | CMP | cAMP-activated global transcriptional regulator CRP | / | 0.767 | |
| 3shr | CMP | cGMP-dependent protein kinase 1 | 2.7.11.12 | 0.763 | |
| 1i5z | CMP | cAMP-activated global transcriptional regulator CRP | / | 0.761 | |
| 4ev0 | CMP | Cyclic AMP receptor protein | / | 0.761 | |
| 3otf | CMP | Potassium/sodium hyperpolarization-activated cyclic nucleotide-gated channel 4 | / | 0.758 | |
| 1ne6 | SP1 | cAMP-dependent protein kinase type I-alpha regulatory subunit | / | 0.756 | |
| 3of1 | CMP | cAMP-dependent protein kinase regulatory subunit | / | 0.756 | |
| 3n4m | CMP | cAMP-activated global transcriptional regulator CRP | / | 0.755 | |
| 5c6c | CMP | cGMP-dependent protein kinase 2 | 2.7.11.12 | 0.754 | |
| 3od0 | PCG | cGMP-dependent protein kinase 1 | 2.7.11.12 | 0.750 | |
| 3rou | CMP | cAMP-activated global transcriptional regulator CRP | / | 0.749 | |
| 1ne4 | RP1 | cAMP-dependent protein kinase type I-alpha regulatory subunit | / | 0.748 | |
| 3qop | CMP | cAMP-activated global transcriptional regulator CRP | / | 0.748 | |
| 4mgk | CMP | Rap guanine nucleotide exchange factor 4 | / | 0.747 | |
| 1q3e | PCG | Potassium/sodium hyperpolarization-activated cyclic nucleotide-gated channel 2 | / | 0.746 | |
| 4i09 | CMP | cAMP-activated global transcriptional regulator CRP | / | 0.743 | |
| 3plq | RP2 | cAMP-dependent protein kinase type I-alpha regulatory subunit | / | 0.740 | |
| 4r8h | SP1 | cAMP-activated global transcriptional regulator CRP | / | 0.740 | |
| 3kcc | CMP | cAMP-activated global transcriptional regulator CRP | / | 0.738 | |
| 2k0g | CMP | Cyclic nucleotide-gated potassium channel mll3241 | / | 0.737 | |
| 4i01 | CMP | cAMP-activated global transcriptional regulator CRP | / | 0.728 | |
| 4i0a | CMP | cAMP-activated global transcriptional regulator CRP | / | 0.724 | |
| 5c8w | PCG | cGMP-dependent protein kinase 2 | 2.7.11.12 | 0.717 | |
| 4n9i | PCG | Catabolite expression activator | / | 0.715 | |
| 1rl3 | PCG | cAMP-dependent protein kinase type I-alpha regulatory subunit | / | 0.714 | |
| 1zrd | CMP | cAMP-activated global transcriptional regulator CRP | / | 0.710 | |
| 3i59 | N6S | CRP-like cAMP-activated global transcriptional regulator | / | 0.693 | |
| 3r6s | CMP | CRP-like cAMP-activated global transcriptional regulator | / | 0.689 | |
| 3i59 | N6R | CRP-like cAMP-activated global transcriptional regulator | / | 0.687 | |
| 1zrc | CMP | cAMP-activated global transcriptional regulator CRP | / | 0.684 | |
| 4mgi | CMP | Rap guanine nucleotide exchange factor 4 | / | 0.679 | |
| 2gzw | CMP | cAMP-activated global transcriptional regulator CRP | / | 0.678 | |
| 4kg1 | PCG | Diguanylate cyclase | / | 0.672 | |
| 3u10 | CMP | Potassium/sodium hyperpolarization-activated cyclic nucleotide-gated channel 2 | / | 0.670 | |
| 5ahw | CMP | Universal stress protein family protein, putative | / | 0.670 | |
| 3mzh | CMP | CRP-like cAMP-activated global transcriptional regulator | / | 0.665 | |
| 4s1b | 2BA | Lmo1466 protein | / | 0.660 | |
| 3rdi | CMP | cAMP-activated global transcriptional regulator CRP | / | 0.657 | |
| 4wbd | ADP | Putative cysteine ligase BshC | / | 0.656 | |
| 4r29 | SAM | Uncharacterized protein | / | 0.655 | |
| 2egw | SAH | Ribosomal RNA small subunit methyltransferase E | 2.1.1.193 | 0.653 | |
| 1ruo | CMP | cAMP-activated global transcriptional regulator CRP | / | 0.652 | |
| 1cgp | CMP | cAMP-activated global transcriptional regulator CRP | / | 0.651 | |
| 2dy9 | ADP | Nucleoside diphosphate kinase | 2.7.4.6 | 0.651 |