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 |
|---|---|---|---|
| 2oem | 1AE | 2,3-diketo-5-methylthiopentyl-1-phosphate enolase | 5.3.2.5 |
| PDB ID | HET | Uniprot Name | EC Number | Binding Site Similarity |
Align |
|---|---|---|---|---|---|
| 2oem | 1AE | 2,3-diketo-5-methylthiopentyl-1-phosphate enolase | 5.3.2.5 | 1.000 | |
| 3sxp | NAD | ADP-L-glycero-D-mannoheptose-6-epimerase | / | 0.489 | |
| 1l7e | NAI | NAD(P) transhydrogenase subunit alpha part 1 | 1.6.1.2 | 0.481 | |
| 2xtz | GSP | Guanine nucleotide-binding protein alpha-1 subunit | / | 0.474 | |
| 1i7l | ATP | Synapsin-2 | / | 0.471 | |
| 5eom | CTP | Putative nucleotidyltransferase MAB21L1 | / | 0.471 | |
| 1u28 | NAD | NAD(P) transhydrogenase subunit alpha part 1 | 1.6.1.2 | 0.470 | |
| 4uz6 | SCR | Palmitoleoyl-protein carboxylesterase NOTUM | / | 0.470 | |
| 1j1c | ADP | Glycogen synthase kinase-3 beta | 2.7.11.26 | 0.469 | |
| 4c77 | N01 | Phenylacetone monooxygenase | 1.14.13.92 | 0.464 | |
| 1v3s | ATP | Signaling protein | / | 0.463 | |
| 2eud | GCQ | Ribonucleoside-diphosphate reductase large chain 1 | 1.17.4.1 | 0.462 | |
| 2z7q | ACP | Ribosomal protein S6 kinase alpha-1 | 2.7.11.1 | 0.461 | |
| 3keu | ATP | Pyridoxal kinase | 2.7.1.35 | 0.461 | |
| 2oor | NAD | NAD(P) transhydrogenase subunit alpha part 1 | 1.6.1.2 | 0.460 | |
| 3mw9 | NAI | Glutamate dehydrogenase 1, mitochondrial | 1.4.1.3 | 0.459 | |
| 5kgh | ACO | Predicted acetyltransferase | / | 0.459 | |
| 1lrj | UD1 | UDP-glucose 4-epimerase | 5.1.3.2 | 0.457 | |
| 2g8a | UMP | Thymidylate synthase | / | 0.457 | |
| 4b3a | TAC | Tetracycline repressor protein class D | / | 0.457 | |
| 2x5z | GDD | Mannose-1-phosphate guanylyltransferase | / | 0.456 | |
| 3lgx | ATP | D-alanine--poly(phosphoribitol) ligase subunit 1 | / | 0.456 | |
| 1hzz | NAD | NAD(P) transhydrogenase subunit alpha part 1 | 1.6.1.2 | 0.455 | |
| 4loh | 1SY | Stimulator of interferon genes protein | / | 0.455 | |
| 4ohv | ANP | Protein clpf-1 | / | 0.454 | |
| 1sb8 | UD2 | WbpP | / | 0.453 | |
| 4yqf | GDP | Septin-9 | / | 0.453 | |
| 5aga | ANP | DNA polymerase theta | / | 0.453 | |
| 2bkk | ADP | Aminoglycoside 3'-phosphotransferase | 2.7.1.95 | 0.452 | |
| 4dg3 | ANP | cAMP-dependent protein kinase catalytic subunit alpha | 2.7.11.11 | 0.452 | |
| 1o6k | ANP | RAC-beta serine/threonine-protein kinase | 2.7.11.1 | 0.451 | |
| 3sop | GDP | Neuronal-specific septin-3 | / | 0.451 | |
| 4ekk | ANP | RAC-alpha serine/threonine-protein kinase | 2.7.11.1 | 0.451 | |
| 4k10 | NI9 | Farnesyl pyrophosphate synthase | / | 0.451 | |
| 1w87 | NAP | Ferredoxin--NADP reductase | 1.18.1.2 | 0.450 | |
| 3juq | AJD | Phenazine biosynthesis protein A/B | / | 0.450 | |
| 4fl2 | ANP | Tyrosine-protein kinase SYK | 2.7.10.2 | 0.450 | |
| 5c1p | ADP | D-alanine--D-alanine ligase | / | 0.450 | |
| 1evj | NAD | Glucose--fructose oxidoreductase | 1.1.99.28 | 0.449 | |
| 3muo | ZPR | Prolyl endopeptidase | / | 0.449 | |
| 4c13 | UML | UDP-N-acetylmuramoyl-L-alanyl-D-glutamate--L-lysine ligase | / | 0.449 | |
| 4qny | ANP | Mitogen activated protein kinase, putative | / | 0.448 | |
| 5cwa | 0GA | Anthranilate synthase component 1 | 4.1.3.27 | 0.448 | |
| 2fsv | NAD | NAD(P) transhydrogenase subunit alpha part 1 | 1.6.1.2 | 0.446 | |
| 3h86 | AP5 | Adenylate kinase | / | 0.446 | |
| 3ufx | GDP | Succinate--CoA ligase [GDP-forming] subunit beta | / | 0.446 | |
| 4m2a | UPG | UDP-glucose pyrophosphorylase | / | 0.446 | |
| 4ohx | ADP | Protein clpf-1 | / | 0.446 | |
| 1c80 | GTP | 6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase 1 | 3.1.3.46 | 0.445 | |
| 2f3r | G5P | Guanylate kinase | 2.7.4.8 | 0.445 | |
| 2x0r | NAD | Malate dehydrogenase | / | 0.445 | |
| 3jzd | NAD | Maleylacetate reductase | / | 0.444 | |
| 4rx6 | ATP | Nitrogen regulatory PII-like protein | / | 0.444 | |
| 2bx8 | AZQ | Serum albumin | / | 0.443 | |
| 2pz8 | APC | NH(3)-dependent NAD(+) synthetase | / | 0.443 | |
| 2x60 | GTP | Mannose-1-phosphate guanylyltransferase | / | 0.443 | |
| 3g49 | NAP | Corticosteroid 11-beta-dehydrogenase isozyme 1 | 1.1.1.146 | 0.443 | |
| 4nke | IPE | Farnesyl pyrophosphate synthase | 2.5.1.10 | 0.443 | |
| 3q67 | NAP | Aldose reductase | 1.1.1.21 | 0.442 | |
| 3r9i | ADP | Septum site-determining protein MinD | / | 0.442 | |
| 4cdg | ADP | Bloom syndrome protein | 3.6.4.12 | 0.442 | |
| 4iay | ADP | cAMP-dependent protein kinase catalytic subunit alpha | 2.7.11.11 | 0.442 | |
| 4wxl | BB2 | Peptide deformylase | / | 0.442 | |
| 5kgp | ACO | Predicted acetyltransferase | / | 0.442 | |
| 1orr | CDP | CDP-paratose 2-epimerase | / | 0.441 | |
| 1ptj | SND | NAD(P) transhydrogenase subunit alpha part 1 | 1.6.1.2 | 0.441 | |
| 1ytm | ATP | Phosphoenolpyruvate carboxykinase (ATP) | / | 0.441 | |
| 4s26 | SAH | Phosphomethylpyrimidine synthase, chloroplastic | 4.1.99.17 | 0.441 | |
| 4zo3 | C6L | Acylhomoserine lactonase | / | 0.441 | |
| 5eg3 | ACP | Fibroblast growth factor receptor 2 | / | 0.441 | |
| 5eoy | ADP | Type 4 fimbrial biogenesis protein PilM | / | 0.441 | |
| 5ftc | ADP | TPR domain protein | / | 0.441 | |
| 3h5n | ATP | MccB protein | / | 0.440 | |
| 3x2v | ATP | cAMP-dependent protein kinase catalytic subunit alpha | 2.7.11.11 | 0.440 | |
| 4d04 | NAP | Phenylacetone monooxygenase | 1.14.13.92 | 0.440 | |
| 4loi | 1YC | Stimulator of interferon genes protein | / | 0.440 | |
| 4ovi | N01 | Phenylacetone monooxygenase | 1.14.13.92 | 0.440 | |
| 4zrn | UPG | UDP-glucose 4-epimerase, putative | / | 0.440 | |
| 5eox | ADP | Type 4 fimbrial biogenesis protein PilM | / | 0.440 |