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 Sites are compared using Shaper.
For more information, please see the following publication:
Desaphy J. et al. Comparison and Druggability Prediction of protein-Ligand Binding sites from pharmacophore-annotated cavity shapes J. Chem. Inf. Model., 2012, 52(8), pp2287-2299
Binding Sites are considered as similar when the similarity value is greater than 0.44
| PDB ID | HET | Uniprot Name | EC Number |
|---|---|---|---|
| 3lp2 | LP9 | Gag-Pol polyprotein | 2.7.7.49 |
| PDB ID | HET | Uniprot Name | EC Number | Binding Site Similarity |
Align |
|---|---|---|---|---|---|
| 3lp2 | LP9 | Gag-Pol polyprotein | 2.7.7.49 | 1.000 | |
| 3prf | FP3 | Serine/threonine-protein kinase B-raf | 2.7.11.1 | 0.475 | |
| 2c31 | ADP | Oxalyl-CoA decarboxylase | 4.1.1.8 | 0.471 | |
| 3njo | P2M | Abscisic acid receptor PYR1 | / | 0.471 | |
| 3njo | PYV | Abscisic acid receptor PYR1 | / | 0.471 | |
| 1z5u | CMP | Class B acid phosphatase | / | 0.468 | |
| 5cae | COA | Succinate--CoA ligase [ADP/GDP-forming] subunit alpha, mitochondrial | 6.2.1.4 | 0.467 | |
| 4fxf | ATP | Pyruvate kinase PKM | 2.7.1.40 | 0.466 | |
| 1y2e | 5DE | cAMP-specific 3',5'-cyclic phosphodiesterase 4D | 3.1.4.53 | 0.464 | |
| 1y2d | 4DE | cAMP-specific 3',5'-cyclic phosphodiesterase 4D | 3.1.4.53 | 0.462 | |
| 2zoz | ET | Transcriptional regulator | / | 0.461 | |
| 2ji9 | ADP | Oxalyl-CoA decarboxylase | 4.1.1.8 | 0.460 | |
| 1xoq | ROF | cAMP-specific 3',5'-cyclic phosphodiesterase 4D | 3.1.4.53 | 0.459 | |
| 2q28 | ADP | Oxalyl-CoA decarboxylase | 4.1.1.8 | 0.458 | |
| 5k2c | ZMA | Adenosine receptor A2a | / | 0.458 | |
| 2b0q | ADP | Aminoglycoside 3'-phosphotransferase | 2.7.1.95 | 0.456 | |
| 4bbx | LKF | cAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A | 3.1.4.17 | 0.456 | |
| 2wey | EV1 | cAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A | 3.1.4.17 | 0.455 | |
| 3nj0 | PYV | Abscisic acid receptor PYL2 | / | 0.455 | |
| 3a1l | 2CC | Cytochrome P450 | / | 0.453 | |
| 3ujl | A8S | Abscisic acid receptor PYL2 | / | 0.452 | |
| 4rh1 | 0TT | Spore photoproduct lyase | / | 0.452 | |
| 3pyz | ANP | Dihydrofolate synthase/folylpolyglutamate synthase | / | 0.451 | |
| 4lg5 | A1O | Abscisic acid receptor PYL2 | / | 0.451 | |
| 1f20 | FAD | Nitric oxide synthase, brain | 1.14.13.39 | 0.450 | |
| 3d3p | 20A | cAMP-specific 3',5'-cyclic phosphodiesterase 4B | 3.1.4.53 | 0.450 | |
| 4o2z | 046 | Mitogen-activated protein kinase | / | 0.450 | |
| 4a4o | 664 | Serine/threonine-protein kinase PLK1 | 2.7.11.21 | 0.449 | |
| 5k2d | ZMA | Adenosine receptor A2a | / | 0.449 | |
| 3uza | T4G | Adenosine receptor A2a | / | 0.449 | |
| 1so2 | 666 | cGMP-inhibited 3',5'-cyclic phosphodiesterase B | 3.1.4.17 | 0.448 | |
| 4plp | NAD | Homospermidine synthase | 2.5.1.44 | 0.448 | |
| 1wbs | LI2 | Mitogen-activated protein kinase 14 | / | 0.447 | |
| 2jle | I15 | Reverse transcriptase/RNaseH | / | 0.447 | |
| 3mp5 | HMG | Hydroxymethylglutaryl-CoA lyase, mitochondrial | 4.1.3.4 | 0.447 | |
| 3sni | 546 | cAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A | 3.1.4.17 | 0.447 | |
| 5k2b | ZMA | Adenosine receptor A2a | / | 0.447 | |
| 3qak | UKA | Adenosine receptor A2a | / | 0.447 | |
| 3qeo | LLT | Deoxycytidine kinase | 2.7.1.74 | 0.446 | |
| 4fk3 | 325 | Serine/threonine-protein kinase B-raf | 2.7.11.1 | 0.445 | |
| 1nue | GDP | Nucleoside diphosphate kinase B | 2.7.4.6 | 0.444 | |
| 1y2c | 3DE | cAMP-specific 3',5'-cyclic phosphodiesterase 4D | 3.1.4.53 | 0.444 | |
| 2azy | CHD | Phospholipase A2, major isoenzyme | 3.1.1.4 | 0.444 | |
| 2b36 | 5PP | Enoyl-[acyl-carrier-protein] reductase [NADH] | 1.3.1.9 | 0.444 | |
| 3dej | RXC | Caspase-3 | 3.4.22.56 | 0.444 | |
| 3hmv | HBT | cAMP-specific 3',5'-cyclic phosphodiesterase 4B | 3.1.4.53 | 0.444 | |
| 3p9t | TCL | Repressor | / | 0.444 | |
| 1oyn | ROL | cAMP-specific 3',5'-cyclic phosphodiesterase 4D | 3.1.4.53 | 0.442 | |
| 2jib | ADP | Oxalyl-CoA decarboxylase | 4.1.1.8 | 0.442 | |
| 2zsd | COA | Pantothenate kinase | 2.7.1.33 | 0.442 | |
| 3jyn | NDP | Quinone oxidoreductase | / | 0.442 | |
| 5dju | FMN | NPH1-2 | / | 0.442 | |
| 2olc | ADP | Methylthioribose kinase | 2.7.1.100 | 0.441 | |
| 2ouu | 35G | cAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A | 3.1.4.17 | 0.441 | |
| 3biz | 61E | Wee1-like protein kinase | 2.7.10.2 | 0.441 | |
| 1xng | DND | NH(3)-dependent NAD(+) synthetase | 6.3.1.5 | 0.440 | |
| 3neg | PYV | Abscisic acid receptor PYL1 | / | 0.440 | |
| 4a5y | G7X | Kinesin-like protein KIF11 | / | 0.440 | |
| 4heu | 15J | cAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A | 3.1.4.17 | 0.440 | |
| 4jln | 18V | Deoxycytidine kinase | 2.7.1.74 | 0.440 | |
| 4phl | PIL | Phosphodiesterase | / | 0.440 | |
| 5f54 | TMP | Single-stranded-DNA-specific exonuclease | / | 0.440 |