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 |
|---|---|---|---|
| 4ph9 | IBP | Prostaglandin G/H synthase 2 | 1.14.99.1 |
| PDB ID | HET | Uniprot Name | EC Number | Binding Site Similarity |
Align |
|---|---|---|---|---|---|
| 4ph9 | IBP | Prostaglandin G/H synthase 2 | 1.14.99.1 | 1.000 | |
| 4fm5 | DF0 | Prostaglandin G/H synthase 2 | 1.14.99.1 | 0.643 | |
| 3ln1 | CEL | Prostaglandin G/H synthase 2 | 1.14.99.1 | 0.637 | |
| 3rr3 | FLR | Prostaglandin G/H synthase 2 | 1.14.99.1 | 0.628 | |
| 3q7d | NPX | Prostaglandin G/H synthase 2 | 1.14.99.1 | 0.605 | |
| 2oye | IM8 | Prostaglandin G/H synthase 1 | 1.14.99.1 | 0.601 | |
| 4cox | IMN | Prostaglandin G/H synthase 2 | 1.14.99.1 | 0.600 | |
| 1ht8 | 34C | Prostaglandin G/H synthase 1 | 1.14.99.1 | 0.575 | |
| 1q4g | BFL | Prostaglandin G/H synthase 1 | 1.14.99.1 | 0.567 | |
| 3mqe | 416 | Prostaglandin G/H synthase 2 | 1.14.99.1 | 0.567 | |
| 1eqh | FLP | Prostaglandin G/H synthase 1 | 1.14.99.1 | 0.564 | |
| 3ntg | D72 | Prostaglandin G/H synthase 2 | 1.14.99.1 | 0.550 | |
| 6cox | S58 | Prostaglandin G/H synthase 2 | 1.14.99.1 | 0.550 | |
| 3pgh | FLP | Prostaglandin G/H synthase 2 | 1.14.99.1 | 0.549 | |
| 4rrx | LUR | Prostaglandin G/H synthase 2 | 1.14.99.1 | 0.549 | |
| 1eqg | IBP | Prostaglandin G/H synthase 1 | 1.14.99.1 | 0.548 | |
| 3n8w | FLP | Prostaglandin G/H synthase 1 | 1.14.99.1 | 0.548 | |
| 3n8x | NIM | Prostaglandin G/H synthase 1 | 1.14.99.1 | 0.544 | |
| 2ayl | FLP | Prostaglandin G/H synthase 1 | 1.14.99.1 | 0.532 | |
| 5ikr | ID8 | Prostaglandin G/H synthase 2 | 1.14.99.1 | 0.512 | |
| 3n8z | FLP | Prostaglandin G/H synthase 1 | 1.14.99.1 | 0.508 | |
| 4rrw | LUR | Prostaglandin G/H synthase 2 | 1.14.99.1 | 0.506 | |
| 4rrz | LUR | Prostaglandin G/H synthase 2 | 1.14.99.1 | 0.506 | |
| 2oyu | IMS | Prostaglandin G/H synthase 1 | 1.14.99.1 | 0.500 | |
| 3ln0 | 52B | Prostaglandin G/H synthase 2 | 1.14.99.1 | 0.496 | |
| 4bb3 | KKA | Isopenicillin N synthase | 1.21.3.1 | 0.479 | |
| 4l9k | EHF | Serum albumin | / | 0.478 | |
| 1ht5 | FL2 | Prostaglandin G/H synthase 1 | 1.14.99.1 | 0.477 | |
| 1rkx | NAD | CDP-D-glucose-4,6-dehydratase | / | 0.473 | |
| 1cx2 | S58 | Prostaglandin G/H synthase 2 | 1.14.99.1 | 0.472 | |
| 1iol | EST | Estradiol 17-beta-dehydrogenase 1 | 1.1.1.62 | 0.467 | |
| 1k6p | XN3 | Gag-Pol polyprotein | 3.4.23.16 | 0.465 | |
| 2xcl | ANP | Phosphoribosylamine--glycine ligase | / | 0.464 | |
| 4eso | NAP | Putative oxidoreductase | / | 0.462 | |
| 5byl | GCP | Bifunctional AAC/APH | 2.3.1 | 0.462 | |
| 1dna | CB3 | Thymidylate synthase | / | 0.461 | |
| 2xb5 | I7T | Tetracycline repressor protein class D | / | 0.461 | |
| 3kjs | NAP | Bifunctional dihydrofolate reductase-thymidylate synthase | / | 0.461 | |
| 4q71 | FAD | Bifunctional protein PutA | / | 0.461 | |
| 3zky | WT4 | Isopenicillin N synthase | 1.21.3.1 | 0.460 | |
| 5ikq | JMS | Prostaglandin G/H synthase 2 | 1.14.99.1 | 0.460 | |
| 2h2q | NAP | Bifunctional dihydrofolate reductase-thymidylate synthase | 1.5.1.3 | 0.459 | |
| 4anu | EM7 | Phosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform | 2.7.1.153 | 0.458 | |
| 4fw8 | NAI | 3-oxoacyl-(Acyl-carrier-protein) reductase | / | 0.458 | |
| 1y0s | 331 | Peroxisome proliferator-activated receptor delta | / | 0.457 | |
| 4amb | DUD | Putative glycosyl transferase | / | 0.457 | |
| 4xld | BRL | Peroxisome proliferator-activated receptor gamma | / | 0.457 | |
| 2f7x | 4EA | cAMP-dependent protein kinase catalytic subunit alpha | 2.7.11.11 | 0.456 | |
| 1juv | NDP | Dihydrofolate reductase | 1.5.1.3 | 0.455 | |
| 2c3q | GTX | Glutathione S-transferase theta-1 | 2.5.1.18 | 0.455 | |
| 2hc4 | VDX | Vitamin D3 receptor A | / | 0.455 | |
| 3qlr | NDP | Dihydrofolate reductase | 1.5.1.3 | 0.455 | |
| 4ia7 | BIV | Vitamin D3 receptor A | / | 0.455 | |
| 4oh4 | ANP | Protein BRASSINOSTEROID INSENSITIVE 1 | 2.7.10.1 | 0.454 | |
| 1o6k | ANP | RAC-beta serine/threonine-protein kinase | 2.7.11.1 | 0.453 | |
| 4m10 | ICD | Prostaglandin G/H synthase 2 | 1.14.99.1 | 0.453 | |
| 2c1b | CQP | cAMP-dependent protein kinase catalytic subunit alpha | 2.7.11.11 | 0.452 | |
| 3kk6 | CEL | Prostaglandin G/H synthase 1 | 1.14.99.1 | 0.452 | |
| 4iae | 1DX | Alr2278 protein | / | 0.452 | |
| 1psd | NAD | D-3-phosphoglycerate dehydrogenase | 1.1.1.95 | 0.451 | |
| 2bxi | AZQ | Serum albumin | / | 0.451 | |
| 2gn8 | NAP | UDP-N-acetylglucosamine 4,6-dehydratase (inverting) | 4.2.1.115 | 0.451 | |
| 2xpv | MIY | Tetracycline repressor protein class D | / | 0.451 | |
| 2znn | S44 | Peroxisome proliferator-activated receptor alpha | / | 0.451 | |
| 3a1l | 2CC | Cytochrome P450 | / | 0.451 | |
| 3dyq | PCG | High affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A | / | 0.451 | |
| 3k7m | FAD | 6-hydroxy-L-nicotine oxidase | / | 0.451 | |
| 4ez8 | DHF | Thymidylate synthase | 2.1.1.45 | 0.451 | |
| 1ork | ATC | Tetracycline repressor protein class D | / | 0.450 | |
| 1pnv | TYD | dTDP-epi-vancosaminyltransferase | 2.4.1.311 | 0.450 | |
| 2jn3 | JN3 | Fatty acid-binding protein, liver | / | 0.450 | |
| 4bgi | I4I | Enoyl-[acyl-carrier-protein] reductase [NADH] | 1.3.1.9 | 0.450 | |
| 1w7k | ADP | Dihydrofolate synthase/folylpolyglutamate synthase | 6.3.2.12 | 0.449 | |
| 2azz | TCH | Phospholipase A2, major isoenzyme | 3.1.1.4 | 0.449 | |
| 3dhe | AND | Estradiol 17-beta-dehydrogenase 1 | 1.1.1.62 | 0.449 | |
| 3zc3 | NAP | Ferredoxin--NADP reductase | 1.18.1.2 | 0.449 | |
| 4itf | TFY | Vitamin D3 receptor | / | 0.449 | |
| 1pkf | EPD | Epothilone C/D epoxidase | 1.14 | 0.448 | |
| 1pxx | DIF | Prostaglandin G/H synthase 2 | 1.14.99.1 | 0.448 | |
| 1rk3 | VDX | Vitamin D3 receptor | / | 0.448 | |
| 3cgd | NAD | Coenzyme A disulfide reductase | / | 0.448 | |
| 3keu | ATP | Pyridoxal kinase | 2.7.1.35 | 0.448 | |
| 4hbm | 0Y7 | E3 ubiquitin-protein ligase Mdm2 | 6.3.2 | 0.448 | |
| 4jnq | FDA | Thioredoxin reductase | / | 0.448 | |
| 4oty | LUR | Prostaglandin G/H synthase 2 | 1.14.99.1 | 0.448 | |
| 5a4k | FAD | NAD(P)H dehydrogenase [quinone] 1 | 1.6.5.2 | 0.448 | |
| 1e1k | FAD | NADPH:adrenodoxin oxidoreductase, mitochondrial | 1.18.1.6 | 0.447 | |
| 2b0m | 201 | Dihydroorotate dehydrogenase (quinone), mitochondrial | 1.3.5.2 | 0.447 | |
| 2c59 | NAD | GDP-mannose 3,5-epimerase | 5.1.3.18 | 0.447 | |
| 2om9 | AJA | Peroxisome proliferator-activated receptor gamma | / | 0.447 | |
| 4bii | PYW | Enoyl-[acyl-carrier-protein] reductase [NADH] | 1.3.1.9 | 0.447 | |
| 4dym | IYZ | Activin receptor type-1 | 2.7.11.30 | 0.447 | |
| 4ejm | NAP | Putative zinc-binding dehydrogenase | / | 0.447 | |
| 2jlc | TPP | 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase | / | 0.446 | |
| 4j6d | TES | Cytochrome P450 monooxygenase | / | 0.446 | |
| 4kcf | AKM | FAD-dependent oxidoreductase | / | 0.446 | |
| 2hb7 | O1C | Vitamin D3 receptor | / | 0.445 | |
| 2i4p | DRH | Peroxisome proliferator-activated receptor gamma | / | 0.445 | |
| 2xlr | FAD | Putative flavin-containing monooxygenase | / | 0.445 | |
| 3w0a | DS5 | Vitamin D3 receptor | / | 0.445 | |
| 3zcw | 4A2 | Kinesin-like protein KIF11 | / | 0.445 | |
| 4ap3 | NAP | Steroid monooxygenase | / | 0.445 | |
| 4hvb | 19P | Phosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform | 2.7.1.153 | 0.445 | |
| 1iid | NHM | Glycylpeptide N-tetradecanoyltransferase | 2.3.1.97 | 0.444 | |
| 1oc1 | ASV | Isopenicillin N synthase | 1.21.3.1 | 0.444 | |
| 1p0h | ACO | Mycothiol acetyltransferase | 2.3.1.189 | 0.444 | |
| 1x8l | OXR | Retinol dehydratase | / | 0.444 | |
| 3bv2 | P38 | Mitogen-activated protein kinase 14 | / | 0.444 | |
| 3k3e | PDB | High affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A | / | 0.444 | |
| 4j6b | PLO | Cytochrome P450 monooxygenase | / | 0.444 | |
| 4ozn | ATP | Ammonium transporter | / | 0.444 | |
| 5kje | PFB | Alcohol dehydrogenase E chain | 1.1.1.1 | 0.444 | |
| 1k74 | 544 | Peroxisome proliferator-activated receptor gamma | / | 0.443 | |
| 1teh | NAD | Alcohol dehydrogenase class-3 | 1.1.1.1 | 0.443 | |
| 2gev | COK | Pantothenate kinase | 2.7.1.33 | 0.443 | |
| 2oxt | SAM | Genome polyprotein | / | 0.443 | |
| 2po7 | CHD | Ferrochelatase, mitochondrial | 4.99.1.1 | 0.443 | |
| 3gw9 | VNI | Lanosterol 14-alpha-demethylase | / | 0.443 | |
| 3u9e | COA | Lmo1369 protein | / | 0.443 | |
| 4z9g | 1Q5 | Corticotropin-releasing factor receptor 1 | / | 0.443 | |
| 1uzw | CDH | Isopenicillin N synthase | 1.21.3.1 | 0.442 | |
| 2pob | GW4 | Peroxisome proliferator-activated receptor gamma | / | 0.442 | |
| 3c0g | 3AM | Peripheral plasma membrane protein CASK | 2.7.11.1 | 0.442 | |
| 3vsp | EK8 | Peroxisome proliferator-activated receptor gamma | / | 0.442 | |
| 4fhh | 0U3 | Vitamin D3 receptor A | / | 0.442 | |
| 1cf3 | FAD | Glucose oxidase | 1.1.3.4 | 0.441 | |
| 1d7l | RFL | p-hydroxybenzoate hydroxylase | / | 0.441 | |
| 1jip | KTN | 6-deoxyerythronolide B hydroxylase | / | 0.441 | |
| 2zat | NAP | Dehydrogenase/reductase SDR family member 4 | 1.1.1.184 | 0.441 | |
| 3hwr | NDP | 2-dehydropantoate 2-reductase | / | 0.441 | |
| 3p3z | P3Z | Putative cytochrome P450 | / | 0.441 | |
| 3qe2 | FMN | NADPH--cytochrome P450 reductase | / | 0.441 | |
| 4axa | RKD | cAMP-dependent protein kinase catalytic subunit alpha | 2.7.11.11 | 0.441 | |
| 4c7k | NAP | Corticosteroid 11-beta-dehydrogenase isozyme 1 | 1.1.1.146 | 0.441 | |
| 4jzy | FAD | Cryptochrome-1 | / | 0.441 | |
| 4l04 | NAP | Isocitrate dehydrogenase [NADP] cytoplasmic | 1.1.1.42 | 0.441 | |
| 5eai | FAD | NAD(P)H dehydrogenase [quinone] 1 | 1.6.5.2 | 0.441 | |
| 1cbr | REA | Cellular retinoic acid-binding protein 1 | / | 0.440 | |
| 1v9o | ADP | Signaling protein | / | 0.440 | |
| 2o7o | DXT | Tetracycline repressor protein class D | / | 0.440 | |
| 2xpw | OTC | Tetracycline repressor protein class D | / | 0.440 | |
| 3gob | HXX | DdmC | / | 0.440 | |
| 3h86 | AP5 | Adenylate kinase | / | 0.440 | |
| 3idb | ANP | cAMP-dependent protein kinase catalytic subunit alpha | 2.7.11.11 | 0.440 | |
| 3te5 | NAI | 5'-AMP-activated protein kinase subunit gamma | / | 0.440 | |
| 3w0i | O11 | Vitamin D3 receptor | / | 0.440 | |
| 3wbf | NAP | Meso-diaminopimelate D-dehydrogenase | / | 0.440 | |
| 4ewn | 0VR | Imidazole glycerol phosphate synthase subunit HisF | 4.1.3 | 0.440 | |
| 4kgm | ATP | Uncharacterized protein | / | 0.440 | |
| 4l7f | 1V5 | Mitogen-activated protein kinase 8 | 2.7.11.24 | 0.440 | |
| 5a88 | ADP | Riboflavin biosynthesis protein RibF | 2.7.1.26 | 0.440 |