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 |
|---|---|---|---|
| 3n4m | CMP | cAMP-activated global transcriptional regulator CRP |
| PDB ID | HET | Uniprot Name | EC Number | Binding Mode Similarity |
Align |
|---|---|---|---|---|---|
| 3n4m | CMP | cAMP-activated global transcriptional regulator CRP | / | 0.913 | |
| 4hzf | CMP | cAMP-activated global transcriptional regulator CRP | / | 0.888 | |
| 3kcc | CMP | cAMP-activated global transcriptional regulator CRP | / | 0.876 | |
| 1i6x | CMP | cAMP-activated global transcriptional regulator CRP | / | 0.874 | |
| 4ft8 | CMP | cAMP-activated global transcriptional regulator CRP | / | 0.874 | |
| 4i0a | CMP | cAMP-activated global transcriptional regulator CRP | / | 0.867 | |
| 2cgp | CMP | cAMP-activated global transcriptional regulator CRP | / | 0.858 | |
| 3ryr | CMP | cAMP-activated global transcriptional regulator CRP | / | 0.857 | |
| 4i02 | CMP | cAMP-activated global transcriptional regulator CRP | / | 0.857 | |
| 1i5z | CMP | cAMP-activated global transcriptional regulator CRP | / | 0.855 | |
| 4i09 | CMP | cAMP-activated global transcriptional regulator CRP | / | 0.855 | |
| 3qop | CMP | cAMP-activated global transcriptional regulator CRP | / | 0.852 | |
| 3ryp | CMP | cAMP-activated global transcriptional regulator CRP | / | 0.852 | |
| 3rou | CMP | cAMP-activated global transcriptional regulator CRP | / | 0.851 | |
| 4i0b | CMP | cAMP-activated global transcriptional regulator CRP | / | 0.846 | |
| 1g6n | CMP | cAMP-activated global transcriptional regulator CRP | / | 0.838 | |
| 2oz6 | CMP | Cyclic AMP receptor-like protein | / | 0.834 | |
| 4i01 | CMP | cAMP-activated global transcriptional regulator CRP | / | 0.823 | |
| 3rpq | CMP | cAMP-activated global transcriptional regulator CRP | / | 0.821 | |
| 4r8h | SP1 | cAMP-activated global transcriptional regulator CRP | / | 0.813 | |
| 1hw5 | CMP | cAMP-activated global transcriptional regulator CRP | / | 0.806 | |
| 1zrd | CMP | cAMP-activated global transcriptional regulator CRP | / | 0.804 | |
| 1q5o | CMP | Potassium/sodium hyperpolarization-activated cyclic nucleotide-gated channel 2 | / | 0.802 | |
| 3rdi | CMP | cAMP-activated global transcriptional regulator CRP | / | 0.794 | |
| 1q43 | CMP | Potassium/sodium hyperpolarization-activated cyclic nucleotide-gated channel 2 | / | 0.787 | |
| 1zrc | CMP | cAMP-activated global transcriptional regulator CRP | / | 0.775 | |
| 1vp6 | CMP | Cyclic nucleotide-gated potassium channel mll3241 | / | 0.773 | |
| 2gzw | CMP | cAMP-activated global transcriptional regulator CRP | / | 0.771 | |
| 4qx5 | CMP | cGMP-dependent protein kinase 1 | 2.7.11.12 | 0.771 | |
| 3u11 | CMP | Potassium/sodium hyperpolarization-activated cyclic nucleotide-gated channel 4 | / | 0.770 | |
| 3bpz | CMP | Potassium/sodium hyperpolarization-activated cyclic nucleotide-gated channel 2 | / | 0.768 | |
| 5c6c | CMP | cGMP-dependent protein kinase 2 | 2.7.11.12 | 0.768 | |
| 3u10 | CMP | Potassium/sodium hyperpolarization-activated cyclic nucleotide-gated channel 2 | / | 0.761 | |
| 1q3e | PCG | Potassium/sodium hyperpolarization-activated cyclic nucleotide-gated channel 2 | / | 0.760 | |
| 1cgp | CMP | cAMP-activated global transcriptional regulator CRP | / | 0.757 | |
| 4d7t | CMP | Uncharacterized protein | / | 0.757 | |
| 2ptm | CMP | Hyperpolarization-activated (Ih) channel | / | 0.755 | |
| 1rgs | CMP | cAMP-dependent protein kinase type I-alpha regulatory subunit | / | 0.754 | |
| 4hbn | CMP | Potassium/sodium hyperpolarization-activated cyclic nucleotide-gated channel 4 | / | 0.750 | |
| 3cl1 | PCG | Cyclic nucleotide-gated potassium channel mll3241 | / | 0.741 | |
| 4d7s | PCG | Uncharacterized protein | / | 0.735 | |
| 5c8w | PCG | cGMP-dependent protein kinase 2 | 2.7.11.12 | 0.730 | |
| 3ocp | CMP | cGMP-dependent protein kinase 1 | 2.7.11.12 | 0.729 | |
| 4z07 | PCG | cGMP-dependent protein kinase 1 | 2.7.11.12 | 0.729 | |
| 3u0z | CMP | Potassium/sodium hyperpolarization-activated cyclic nucleotide-gated channel 1 | / | 0.725 | |
| 4jv4 | 1OR | cAMP-dependent protein kinase type I-alpha regulatory subunit | / | 0.725 | |
| 3shr | CMP | cGMP-dependent protein kinase 1 | 2.7.11.12 | 0.716 | |
| 4ku7 | PCG | cGMP-dependent protein kinase 1 | 2.7.11.12 | 0.713 | |
| 3r6s | CMP | CRP-like cAMP-activated global transcriptional regulator | / | 0.712 | |
| 3otf | CMP | Potassium/sodium hyperpolarization-activated cyclic nucleotide-gated channel 4 | / | 0.708 | |
| 4ev0 | CMP | Cyclic AMP receptor protein | / | 0.702 | |
| 4n9i | PCG | Catabolite expression activator | / | 0.702 | |
| 1cx4 | CMP | cAMP-dependent protein kinase type II-beta regulatory subunit | / | 0.698 | |
| 3od0 | PCG | cGMP-dependent protein kinase 1 | 2.7.11.12 | 0.696 | |
| 1rl3 | PCG | cAMP-dependent protein kinase type I-alpha regulatory subunit | / | 0.691 | |
| 4mgk | CMP | Rap guanine nucleotide exchange factor 4 | / | 0.691 | |
| 1ne4 | RP1 | cAMP-dependent protein kinase type I-alpha regulatory subunit | / | 0.688 | |
| 2k0g | CMP | Cyclic nucleotide-gated potassium channel mll3241 | / | 0.686 | |
| 3plq | RP2 | cAMP-dependent protein kinase type I-alpha regulatory subunit | / | 0.682 | |
| 1ne6 | SP1 | cAMP-dependent protein kinase type I-alpha regulatory subunit | / | 0.681 | |
| 3of1 | CMP | cAMP-dependent protein kinase regulatory subunit | / | 0.671 | |
| 1ruo | CMP | cAMP-activated global transcriptional regulator CRP | / | 0.670 | |
| 3i59 | N6R | CRP-like cAMP-activated global transcriptional regulator | / | 0.670 | |
| 3i59 | N6S | CRP-like cAMP-activated global transcriptional regulator | / | 0.665 | |
| 4hr2 | ADP | Nucleoside diphosphate kinase | / | 0.665 | |
| 4kg1 | PCG | Diguanylate cyclase | / | 0.665 | |
| 5a7y | SAH | tRNA (adenine(9)-N1)-methyltransferase | 2.1.1.218 | 0.665 | |
| 4jva | 1OR | cAMP-dependent protein kinase type II-beta regulatory subunit | / | 0.664 | |
| 3ogj | CMP | cGMP-dependent protein kinase 1 | 2.7.11.12 | 0.655 | |
| 4mgi | CMP | Rap guanine nucleotide exchange factor 4 | / | 0.650 |