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 |
|---|---|---|---|
| 2eft | COA | 3-oxoacyl-[acyl-carrier-protein] synthase 3 |
| PDB ID | HET | Uniprot Name | EC Number | Binding Site Similarity |
Align |
|---|---|---|---|---|---|
| 2eft | COA | 3-oxoacyl-[acyl-carrier-protein] synthase 3 | / | 1.000 | |
| 2gyo | COA | 3-oxoacyl-[acyl-carrier-protein] synthase 3 | / | 0.595 | |
| 1hnd | COA | 3-oxoacyl-[acyl-carrier-protein] synthase 3 | / | 0.565 | |
| 1hnj | MLC | 3-oxoacyl-[acyl-carrier-protein] synthase 3 | / | 0.557 | |
| 1hnh | COA | 3-oxoacyl-[acyl-carrier-protein] synthase 3 | / | 0.498 | |
| 1vrw | NAI | Enoyl-ACP reductase | / | 0.486 | |
| 2bu9 | HFV | Isopenicillin N synthase | 1.21.3.1 | 0.483 | |
| 1zeo | C01 | Peroxisome proliferator-activated receptor gamma | / | 0.482 | |
| 1mzs | 669 | 3-oxoacyl-[acyl-carrier-protein] synthase 3 | / | 0.476 | |
| 1f8f | NAD | Benzyl alcohol dehydrogenase | / | 0.473 | |
| 4ia7 | BIV | Vitamin D3 receptor A | / | 0.472 | |
| 3stw | 2TD | Methylketone synthase I | / | 0.469 | |
| 1uzw | CDH | Isopenicillin N synthase | 1.21.3.1 | 0.468 | |
| 3uoz | FAD | 2-oxo-Delta(3)-4,5,5-trimethylcyclopentenylacetyl-CoA monooxygenase | 1.14.13.160 | 0.462 | |
| 2cig | 1DG | Dihydrofolate reductase | 1.5.1.3 | 0.460 | |
| 1dr3 | TAP | Dihydrofolate reductase | 1.5.1.3 | 0.457 | |
| 1osv | CHC | Bile acid receptor | / | 0.457 | |
| 2pkr | NDP | Glyceraldehyde-3-phosphate dehydrogenase A, chloroplastic | 1.2.1.13 | 0.457 | |
| 3sn6 | P0G | Beta-2 adrenergic receptor | / | 0.457 | |
| 1a72 | PAD | Alcohol dehydrogenase E chain | 1.1.1.1 | 0.456 | |
| 1bdr | IM1 | Gag-Pol polyprotein | 3.4.23.16 | 0.456 | |
| 4bb3 | KKA | Isopenicillin N synthase | 1.21.3.1 | 0.456 | |
| 4g1z | 0VP | Vitamin D3 receptor A | / | 0.456 | |
| 4ji9 | 1M3 | Tyrosine-protein kinase JAK2 | / | 0.456 | |
| 1eio | GCH | Gastrotropin | / | 0.455 | |
| 2b52 | D42 | Cyclin-dependent kinase 2 | 2.7.11.22 | 0.454 | |
| 3il4 | ACO | 3-oxoacyl-[acyl-carrier-protein] synthase 3 | / | 0.454 | |
| 3vtc | TK3 | Vitamin D3 receptor | / | 0.454 | |
| 4b7x | NAP | Probable oxidoreductase | / | 0.454 | |
| 1ebl | COA | 3-oxoacyl-[acyl-carrier-protein] synthase 3 | / | 0.453 | |
| 2prh | 238 | Dihydroorotate dehydrogenase (quinone), mitochondrial | 1.3.5.2 | 0.453 | |
| 2vna | NAP | Prostaglandin reductase 2 | 1.3.1.48 | 0.453 | |
| 3aid | ARQ | Gag-Pol polyprotein | 3.4.23.16 | 0.453 | |
| 4g1y | 0VO | Vitamin D3 receptor A | / | 0.453 | |
| 1zg3 | 2HI | Isoflavone 4'-O-methyltransferase | / | 0.452 | |
| 2hc4 | VDX | Vitamin D3 receptor A | / | 0.452 | |
| 4a8v | 2AN | Major pollen allergen Bet v 1-J | / | 0.452 | |
| 4kx6 | FAD | Fumarate reductase flavoprotein subunit | 1.3.5.4 | 0.452 | |
| 1yb5 | NAP | Quinone oxidoreductase | 1.6.5.5 | 0.451 | |
| 2i4z | DRH | Peroxisome proliferator-activated receptor gamma | / | 0.451 | |
| 3m6i | NAD | L-arabinitol 4-dehydrogenase | 1.1.1.12 | 0.451 | |
| 4ia1 | BIV | Vitamin D3 receptor A | / | 0.451 | |
| 3lqf | NAD | Galactitol dehydrogenase | / | 0.450 | |
| 3tqa | NDP | Dihydrofolate reductase | / | 0.450 | |
| 4u9z | COA | Alpha-tubulin N-acetyltransferase 1 | / | 0.450 | |
| 2b37 | NAD | Enoyl-[acyl-carrier-protein] reductase [NADH] | 1.3.1.9 | 0.449 | |
| 3m7r | VDX | Vitamin D3 receptor | / | 0.449 | |
| 4okb | 198 | Androgen receptor | / | 0.449 | |
| 1xdd | AAY | Integrin alpha-L | / | 0.448 | |
| 2j14 | GNI | Peroxisome proliferator-activated receptor delta | / | 0.448 | |
| 3rj9 | NAD | Alcohol dehydrogenase | 1.1.1.1 | 0.448 | |
| 1e3e | NAI | Alcohol dehydrogenase 4 | 1.1.1.1 | 0.447 | |
| 2h9i | EAD | Enoyl-[acyl-carrier-protein] reductase [NADH] | 1.3.1.9 | 0.447 | |
| 3cyl | VIT | Basic phospholipase A2 homolog piratoxin-2 | / | 0.447 | |
| 4bcr | WY1 | Peroxisome proliferator-activated receptor alpha | / | 0.447 | |
| 4rqu | NAD | Alcohol dehydrogenase class-P | / | 0.447 | |
| 2x6d | X6D | Aurora kinase A | 2.7.11.1 | 0.446 | |
| 3w0j | T08 | Vitamin D3 receptor | / | 0.446 | |
| 3zep | 1NX | Tyrosine-protein kinase JAK3 | 2.7.10.2 | 0.446 | |
| 1bv7 | XV6 | Gag-Pol polyprotein | 3.4.23.16 | 0.445 | |
| 1ec3 | MS3 | Gag-Pol polyprotein | 3.4.23.16 | 0.445 | |
| 1q8y | ADP | Serine/threonine-protein kinase SKY1 | 2.7.11.1 | 0.445 | |
| 1tll | FAD | Nitric oxide synthase, brain | 1.14.13.39 | 0.445 | |
| 2bpx | MK1 | Gag-Pol polyprotein | 3.4.23.16 | 0.445 | |
| 2ddo | ATP | Pyridoxine/pyridoxal/pyridoxamine kinase | / | 0.445 | |
| 2rbe | NDP | Corticosteroid 11-beta-dehydrogenase isozyme 1 | 1.1.1.146 | 0.445 | |
| 2uy0 | HV1 | Gag-Pol polyprotein | 3.4.23.16 | 0.445 | |
| 2znq | 401 | Peroxisome proliferator-activated receptor delta | / | 0.445 | |
| 3efw | AK8 | Aurora kinase A | 2.7.11.1 | 0.445 | |
| 4ia3 | BIV | Vitamin D3 receptor A | / | 0.445 | |
| 2b7a | IZA | Tyrosine-protein kinase JAK2 | / | 0.444 | |
| 2hcd | BIV | Vitamin D3 receptor A | / | 0.444 | |
| 2ojj | 82A | Mitogen-activated protein kinase 1 | 2.7.11.24 | 0.444 | |
| 2vcm | M11 | Isopenicillin N synthase | 1.21.3.1 | 0.444 | |
| 2vw5 | BC6 | ATP-dependent molecular chaperone HSP82 | / | 0.444 | |
| 2znn | S44 | Peroxisome proliferator-activated receptor alpha | / | 0.444 | |
| 3fco | IIG | Corticosteroid 11-beta-dehydrogenase isozyme 1 | 1.1.1.146 | 0.444 | |
| 3kdd | JZQ | Gag-Pol polyprotein | 3.4.23.16 | 0.444 | |
| 4fhh | 0U3 | Vitamin D3 receptor A | / | 0.444 | |
| 4jd3 | COA | Alpha-pyrone synthesis polyketide synthase-like Pks11 | 2.3.1 | 0.444 | |
| 4oxy | NAD | Enoyl-[acyl-carrier-protein] reductase [NADH] | 1.3.1.9 | 0.444 | |
| 5kjc | PFB | Alcohol dehydrogenase E chain | 1.1.1.1 | 0.444 | |
| 1h6d | NDP | Glucose--fructose oxidoreductase | 1.1.99.28 | 0.443 | |
| 1upw | 444 | Oxysterols receptor LXR-beta | / | 0.443 | |
| 2ath | 3EA | Peroxisome proliferator-activated receptor gamma | / | 0.443 | |
| 4ite | TEY | Vitamin D3 receptor | / | 0.443 | |
| 1dxo | FAD | NAD(P)H dehydrogenase [quinone] 1 | 1.6.5.2 | 0.442 | |
| 1hb3 | SCV | Isopenicillin N synthase | 1.21.3.1 | 0.442 | |
| 2d8a | NAD | L-threonine 3-dehydrogenase | / | 0.442 | |
| 2f4b | EHA | Peroxisome proliferator-activated receptor gamma | / | 0.442 | |
| 2qi3 | MZ5 | Gag-Pol polyprotein | / | 0.442 | |
| 3lli | FAD | Sulfhydryl oxidase 1 | 1.8.3.2 | 0.442 | |
| 3ndx | RIT | Gag-Pol polyprotein | 3.4.23.16 | 0.442 | |
| 4u9y | COA | Alpha-tubulin N-acetyltransferase 1 | / | 0.442 | |
| 2hwr | DRD | Peroxisome proliferator-activated receptor gamma | / | 0.441 | |
| 2w3b | NDP | Dihydrofolate reductase | 1.5.1.3 | 0.441 | |
| 3nf7 | CIW | Gag-Pol polyprotein | / | 0.441 | |
| 4kqw | NAP | Ketol-acid reductoisomerase (NADP(+)) | / | 0.441 | |
| 4okx | 198 | Androgen receptor | / | 0.441 | |
| 4q71 | FAD | Bifunctional protein PutA | / | 0.441 | |
| 4qjq | OTR | Lactoperoxidase | / | 0.441 | |
| 4rf2 | NAP | NADPH dependent R-specific alcohol dehydrogenase | / | 0.441 | |
| 4wdb | 2AM | 2',3'-cyclic-nucleotide 3'-phosphodiesterase | 3.1.4.37 | 0.441 | |
| 5cno | ANP | Epidermal growth factor receptor | 2.7.10.1 | 0.441 | |
| 1o8c | NDP | Probable acrylyl-CoA reductase AcuI | 1.3.1.84 | 0.440 | |
| 2b53 | D23 | Cyclin-dependent kinase 2 | 2.7.11.22 | 0.440 | |
| 2fxe | DR7 | Gag-Pol polyprotein | 3.4.23.16 | 0.440 | |
| 2q5k | AB1 | Protease | / | 0.440 | |
| 3ec0 | GRL | Gag-Pol polyprotein | 3.4.23.47 | 0.440 | |
| 3g8e | IS1 | Nicotinamide phosphoribosyltransferase | 2.4.2.12 | 0.440 | |
| 3vt5 | YI2 | Vitamin D3 receptor | / | 0.440 | |
| 4fc7 | NAP | Peroxisomal 2,4-dienoyl-CoA reductase | 1.3.1.34 | 0.440 |