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 |
|---|---|---|---|
| 3ryp | CMP | cAMP-activated global transcriptional regulator CRP |
| PDB ID | HET | Uniprot Name | EC Number | Binding Mode Similarity |
Align |
|---|---|---|---|---|---|
| 3ryp | CMP | cAMP-activated global transcriptional regulator CRP | / | 0.969 | |
| 4hzf | CMP | cAMP-activated global transcriptional regulator CRP | / | 0.942 | |
| 3rou | CMP | cAMP-activated global transcriptional regulator CRP | / | 0.939 | |
| 4ft8 | CMP | cAMP-activated global transcriptional regulator CRP | / | 0.921 | |
| 4i0b | CMP | cAMP-activated global transcriptional regulator CRP | / | 0.921 | |
| 1g6n | CMP | cAMP-activated global transcriptional regulator CRP | / | 0.902 | |
| 4i02 | CMP | cAMP-activated global transcriptional regulator CRP | / | 0.902 | |
| 4i0a | CMP | cAMP-activated global transcriptional regulator CRP | / | 0.902 | |
| 3kcc | CMP | cAMP-activated global transcriptional regulator CRP | / | 0.891 | |
| 1i5z | CMP | cAMP-activated global transcriptional regulator CRP | / | 0.889 | |
| 3qop | CMP | cAMP-activated global transcriptional regulator CRP | / | 0.886 | |
| 4i09 | CMP | cAMP-activated global transcriptional regulator CRP | / | 0.885 | |
| 1hw5 | CMP | cAMP-activated global transcriptional regulator CRP | / | 0.869 | |
| 2cgp | CMP | cAMP-activated global transcriptional regulator CRP | / | 0.864 | |
| 3rdi | CMP | cAMP-activated global transcriptional regulator CRP | / | 0.863 | |
| 2oz6 | CMP | Cyclic AMP receptor-like protein | / | 0.859 | |
| 1zrd | CMP | cAMP-activated global transcriptional regulator CRP | / | 0.857 | |
| 3n4m | CMP | cAMP-activated global transcriptional regulator CRP | / | 0.852 | |
| 1i6x | CMP | cAMP-activated global transcriptional regulator CRP | / | 0.848 | |
| 4r8h | SP1 | cAMP-activated global transcriptional regulator CRP | / | 0.846 | |
| 1vp6 | CMP | Cyclic nucleotide-gated potassium channel mll3241 | / | 0.821 | |
| 4i01 | CMP | cAMP-activated global transcriptional regulator CRP | / | 0.819 | |
| 3rpq | CMP | cAMP-activated global transcriptional regulator CRP | / | 0.813 | |
| 3ryr | CMP | cAMP-activated global transcriptional regulator CRP | / | 0.811 | |
| 2gzw | CMP | cAMP-activated global transcriptional regulator CRP | / | 0.800 | |
| 4qx5 | CMP | cGMP-dependent protein kinase 1 | 2.7.11.12 | 0.789 | |
| 2ptm | CMP | Hyperpolarization-activated (Ih) channel | / | 0.780 | |
| 1zrc | CMP | cAMP-activated global transcriptional regulator CRP | / | 0.777 | |
| 4hbn | CMP | Potassium/sodium hyperpolarization-activated cyclic nucleotide-gated channel 4 | / | 0.774 | |
| 3ocp | CMP | cGMP-dependent protein kinase 1 | 2.7.11.12 | 0.772 | |
| 1q43 | CMP | Potassium/sodium hyperpolarization-activated cyclic nucleotide-gated channel 2 | / | 0.767 | |
| 3u10 | CMP | Potassium/sodium hyperpolarization-activated cyclic nucleotide-gated channel 2 | / | 0.766 | |
| 4z07 | PCG | cGMP-dependent protein kinase 1 | 2.7.11.12 | 0.763 | |
| 4d7t | CMP | Uncharacterized protein | / | 0.762 | |
| 1q5o | CMP | Potassium/sodium hyperpolarization-activated cyclic nucleotide-gated channel 2 | / | 0.761 | |
| 1cgp | CMP | cAMP-activated global transcriptional regulator CRP | / | 0.759 | |
| 3shr | CMP | cGMP-dependent protein kinase 1 | 2.7.11.12 | 0.759 | |
| 3u11 | CMP | Potassium/sodium hyperpolarization-activated cyclic nucleotide-gated channel 4 | / | 0.756 | |
| 3bpz | CMP | Potassium/sodium hyperpolarization-activated cyclic nucleotide-gated channel 2 | / | 0.750 | |
| 3ogj | CMP | cGMP-dependent protein kinase 1 | 2.7.11.12 | 0.748 | |
| 3od0 | PCG | cGMP-dependent protein kinase 1 | 2.7.11.12 | 0.747 | |
| 4ev0 | CMP | Cyclic AMP receptor protein | / | 0.746 | |
| 3u0z | CMP | Potassium/sodium hyperpolarization-activated cyclic nucleotide-gated channel 1 | / | 0.743 | |
| 5c6c | CMP | cGMP-dependent protein kinase 2 | 2.7.11.12 | 0.741 | |
| 4ku7 | PCG | cGMP-dependent protein kinase 1 | 2.7.11.12 | 0.733 | |
| 1rgs | CMP | cAMP-dependent protein kinase type I-alpha regulatory subunit | / | 0.731 | |
| 1cx4 | CMP | cAMP-dependent protein kinase type II-beta regulatory subunit | / | 0.728 | |
| 3otf | CMP | Potassium/sodium hyperpolarization-activated cyclic nucleotide-gated channel 4 | / | 0.726 | |
| 5c8w | PCG | cGMP-dependent protein kinase 2 | 2.7.11.12 | 0.725 | |
| 1ne4 | RP1 | cAMP-dependent protein kinase type I-alpha regulatory subunit | / | 0.722 | |
| 3r6s | CMP | CRP-like cAMP-activated global transcriptional regulator | / | 0.722 | |
| 4mgk | CMP | Rap guanine nucleotide exchange factor 4 | / | 0.722 | |
| 3cl1 | PCG | Cyclic nucleotide-gated potassium channel mll3241 | / | 0.718 | |
| 2k0g | CMP | Cyclic nucleotide-gated potassium channel mll3241 | / | 0.717 | |
| 4jv4 | 1OR | cAMP-dependent protein kinase type I-alpha regulatory subunit | / | 0.717 | |
| 4n9i | PCG | Catabolite expression activator | / | 0.713 | |
| 1q3e | PCG | Potassium/sodium hyperpolarization-activated cyclic nucleotide-gated channel 2 | / | 0.709 | |
| 4jva | 1OR | cAMP-dependent protein kinase type II-beta regulatory subunit | / | 0.703 | |
| 1ne6 | SP1 | cAMP-dependent protein kinase type I-alpha regulatory subunit | / | 0.699 | |
| 3plq | RP2 | cAMP-dependent protein kinase type I-alpha regulatory subunit | / | 0.693 | |
| 3i59 | N6S | CRP-like cAMP-activated global transcriptional regulator | / | 0.681 | |
| 2ioa | ADP | Bifunctional glutathionylspermidine synthetase/amidase | / | 0.674 | |
| 3of1 | CMP | cAMP-dependent protein kinase regulatory subunit | / | 0.670 | |
| 4s1b | 2BA | Lmo1466 protein | / | 0.668 | |
| 4d7s | PCG | Uncharacterized protein | / | 0.667 | |
| 4kg1 | PCG | Diguanylate cyclase | / | 0.664 | |
| 1ruo | CMP | cAMP-activated global transcriptional regulator CRP | / | 0.659 | |
| 2p0a | ANP | Synapsin-3 | / | 0.659 | |
| 4c5b | ADP | D-alanine--D-alanine ligase B | 6.3.2.4 | 0.654 | |
| 1mjh | ATP | Universal stress protein MJ0577 | / | 0.651 | |
| 4hr2 | ADP | Nucleoside diphosphate kinase | / | 0.651 | |
| 4prx | ADP | DNA gyrase subunit B | / | 0.651 |