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 |
|---|---|---|---|
| 4i02 | CMP | cAMP-activated global transcriptional regulator CRP |
| PDB ID | HET | Uniprot Name | EC Number | Binding Mode Similarity |
Align |
|---|---|---|---|---|---|
| 4i02 | CMP | cAMP-activated global transcriptional regulator CRP | / | 0.986 | |
| 4hzf | CMP | cAMP-activated global transcriptional regulator CRP | / | 0.959 | |
| 3rou | CMP | cAMP-activated global transcriptional regulator CRP | / | 0.935 | |
| 2cgp | CMP | cAMP-activated global transcriptional regulator CRP | / | 0.918 | |
| 3ryp | CMP | cAMP-activated global transcriptional regulator CRP | / | 0.902 | |
| 4ft8 | CMP | cAMP-activated global transcriptional regulator CRP | / | 0.900 | |
| 4i0a | CMP | cAMP-activated global transcriptional regulator CRP | / | 0.898 | |
| 3qop | CMP | cAMP-activated global transcriptional regulator CRP | / | 0.883 | |
| 4i09 | CMP | cAMP-activated global transcriptional regulator CRP | / | 0.882 | |
| 2oz6 | CMP | Cyclic AMP receptor-like protein | / | 0.881 | |
| 4i0b | CMP | cAMP-activated global transcriptional regulator CRP | / | 0.881 | |
| 1i5z | CMP | cAMP-activated global transcriptional regulator CRP | / | 0.864 | |
| 1i6x | CMP | cAMP-activated global transcriptional regulator CRP | / | 0.862 | |
| 3n4m | CMP | cAMP-activated global transcriptional regulator CRP | / | 0.857 | |
| 4i01 | CMP | cAMP-activated global transcriptional regulator CRP | / | 0.851 | |
| 3kcc | CMP | cAMP-activated global transcriptional regulator CRP | / | 0.850 | |
| 1g6n | CMP | cAMP-activated global transcriptional regulator CRP | / | 0.845 | |
| 4qx5 | CMP | cGMP-dependent protein kinase 1 | 2.7.11.12 | 0.835 | |
| 1vp6 | CMP | Cyclic nucleotide-gated potassium channel mll3241 | / | 0.825 | |
| 4r8h | SP1 | cAMP-activated global transcriptional regulator CRP | / | 0.824 | |
| 3rdi | CMP | cAMP-activated global transcriptional regulator CRP | / | 0.822 | |
| 1zrd | CMP | cAMP-activated global transcriptional regulator CRP | / | 0.816 | |
| 3ryr | CMP | cAMP-activated global transcriptional regulator CRP | / | 0.806 | |
| 2ptm | CMP | Hyperpolarization-activated (Ih) channel | / | 0.791 | |
| 3rpq | CMP | cAMP-activated global transcriptional regulator CRP | / | 0.791 | |
| 3u0z | CMP | Potassium/sodium hyperpolarization-activated cyclic nucleotide-gated channel 1 | / | 0.788 | |
| 3ocp | CMP | cGMP-dependent protein kinase 1 | 2.7.11.12 | 0.777 | |
| 1cx4 | CMP | cAMP-dependent protein kinase type II-beta regulatory subunit | / | 0.773 | |
| 2gzw | CMP | cAMP-activated global transcriptional regulator CRP | / | 0.772 | |
| 4z07 | PCG | cGMP-dependent protein kinase 1 | 2.7.11.12 | 0.764 | |
| 3shr | CMP | cGMP-dependent protein kinase 1 | 2.7.11.12 | 0.762 | |
| 1q5o | CMP | Potassium/sodium hyperpolarization-activated cyclic nucleotide-gated channel 2 | / | 0.760 | |
| 4ku7 | PCG | cGMP-dependent protein kinase 1 | 2.7.11.12 | 0.759 | |
| 5c6c | CMP | cGMP-dependent protein kinase 2 | 2.7.11.12 | 0.758 | |
| 3cl1 | PCG | Cyclic nucleotide-gated potassium channel mll3241 | / | 0.756 | |
| 3u10 | CMP | Potassium/sodium hyperpolarization-activated cyclic nucleotide-gated channel 2 | / | 0.755 | |
| 4d7t | CMP | Uncharacterized protein | / | 0.754 | |
| 3od0 | PCG | cGMP-dependent protein kinase 1 | 2.7.11.12 | 0.751 | |
| 4ev0 | CMP | Cyclic AMP receptor protein | / | 0.749 | |
| 4d7s | PCG | Uncharacterized protein | / | 0.748 | |
| 3u11 | CMP | Potassium/sodium hyperpolarization-activated cyclic nucleotide-gated channel 4 | / | 0.745 | |
| 4hbn | CMP | Potassium/sodium hyperpolarization-activated cyclic nucleotide-gated channel 4 | / | 0.742 | |
| 1q43 | CMP | Potassium/sodium hyperpolarization-activated cyclic nucleotide-gated channel 2 | / | 0.740 | |
| 1zrc | CMP | cAMP-activated global transcriptional regulator CRP | / | 0.740 | |
| 3bpz | CMP | Potassium/sodium hyperpolarization-activated cyclic nucleotide-gated channel 2 | / | 0.737 | |
| 1q3e | PCG | Potassium/sodium hyperpolarization-activated cyclic nucleotide-gated channel 2 | / | 0.734 | |
| 1rgs | CMP | cAMP-dependent protein kinase type I-alpha regulatory subunit | / | 0.734 | |
| 3otf | CMP | Potassium/sodium hyperpolarization-activated cyclic nucleotide-gated channel 4 | / | 0.731 | |
| 1cgp | CMP | cAMP-activated global transcriptional regulator CRP | / | 0.729 | |
| 4jv4 | 1OR | cAMP-dependent protein kinase type I-alpha regulatory subunit | / | 0.723 | |
| 3of1 | CMP | cAMP-dependent protein kinase regulatory subunit | / | 0.714 | |
| 3ogj | CMP | cGMP-dependent protein kinase 1 | 2.7.11.12 | 0.712 | |
| 5c8w | PCG | cGMP-dependent protein kinase 2 | 2.7.11.12 | 0.711 | |
| 1hw5 | CMP | cAMP-activated global transcriptional regulator CRP | / | 0.710 | |
| 4mgk | CMP | Rap guanine nucleotide exchange factor 4 | / | 0.709 | |
| 4n9i | PCG | Catabolite expression activator | / | 0.709 | |
| 3r6s | CMP | CRP-like cAMP-activated global transcriptional regulator | / | 0.706 | |
| 3i59 | N6R | CRP-like cAMP-activated global transcriptional regulator | / | 0.702 | |
| 1ne6 | SP1 | cAMP-dependent protein kinase type I-alpha regulatory subunit | / | 0.700 | |
| 4kg1 | PCG | Diguanylate cyclase | / | 0.697 | |
| 4jva | 1OR | cAMP-dependent protein kinase type II-beta regulatory subunit | / | 0.682 | |
| 3i59 | N6S | CRP-like cAMP-activated global transcriptional regulator | / | 0.681 | |
| 1ruo | CMP | cAMP-activated global transcriptional regulator CRP | / | 0.679 | |
| 3plq | RP2 | cAMP-dependent protein kinase type I-alpha regulatory subunit | / | 0.677 | |
| 1ne4 | RP1 | cAMP-dependent protein kinase type I-alpha regulatory subunit | / | 0.675 | |
| 4hr2 | ADP | Nucleoside diphosphate kinase | / | 0.668 | |
| 4jwf | SAH | tRNA (guanine(9)-N1)-methyltransferase | / | 0.663 | |
| 2k0g | CMP | Cyclic nucleotide-gated potassium channel mll3241 | / | 0.661 | |
| 3oii | SAH | Ribosomal RNA small subunit methyltransferase NEP1 | / | 0.658 | |
| 2z08 | ATP | Universal stress protein family | / | 0.653 | |
| 4mgi | CMP | Rap guanine nucleotide exchange factor 4 | / | 0.652 | |
| 2dxf | GNP | Nucleoside diphosphate kinase | 2.7.4.6 | 0.651 |