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 |
|---|---|---|---|
| 3uaw | ADN | Purine nucleoside phosphorylase DeoD-type |
| PDB ID | HET | Uniprot Name | EC Number | Binding Site Similarity |
Align |
|---|---|---|---|---|---|
| 3uaw | ADN | Purine nucleoside phosphorylase DeoD-type | / | 1.000 | |
| 3uay | ADN | Purine nucleoside phosphorylase DeoD-type | / | 0.708 | |
| 3uax | NOS | Purine nucleoside phosphorylase DeoD-type | / | 0.645 | |
| 1pr6 | XYA | Purine nucleoside phosphorylase DeoD-type | / | 0.622 | |
| 1pr0 | NOS | Purine nucleoside phosphorylase DeoD-type | / | 0.617 | |
| 4da6 | GA2 | Purine nucleoside phosphorylase DeoD-type | 2.4.2.1 | 0.610 | |
| 4da7 | AC2 | Purine nucleoside phosphorylase DeoD-type | 2.4.2.1 | 0.608 | |
| 1pke | 2FD | Purine nucleoside phosphorylase DeoD-type | / | 0.595 | |
| 1pr1 | FMB | Purine nucleoside phosphorylase DeoD-type | / | 0.588 | |
| 1pr5 | TBN | Purine nucleoside phosphorylase DeoD-type | / | 0.584 | |
| 1pk9 | 2FA | Purine nucleoside phosphorylase DeoD-type | / | 0.581 | |
| 1a69 | FMB | Purine nucleoside phosphorylase DeoD-type | / | 0.559 | |
| 1pr4 | MTP | Purine nucleoside phosphorylase DeoD-type | / | 0.557 | |
| 4da0 | GNG | Purine nucleoside phosphorylase DeoD-type | 2.4.2.1 | 0.556 | |
| 2isc | 223 | Purine nucleoside phosphorylase, putative | / | 0.546 | |
| 4dan | 2FA | Purine nucleoside phosphorylase DeoD-type | 2.4.2.1 | 0.544 | |
| 4ttj | FMC | Purine nucleoside phosphorylase DeoD-type | / | 0.544 | |
| 1k9s | FM1 | Purine nucleoside phosphorylase DeoD-type | / | 0.532 | |
| 2bsx | NOS | Purine nucleoside phosphorylase | / | 0.531 | |
| 4ts9 | FMC | Purine nucleoside phosphorylase DeoD-type | / | 0.525 | |
| 2i4t | UA2 | Purine nucleoside phosphorylase, putative | / | 0.518 | |
| 3occ | DIH | Purine nucleoside phosphorylase DeoD-type | / | 0.506 | |
| 1k9s | FM2 | Purine nucleoside phosphorylase DeoD-type | / | 0.505 | |
| 1jdz | FMB | Purine nucleoside phosphorylase | / | 0.501 | |
| 4da8 | BG2 | Purine nucleoside phosphorylase DeoD-type | 2.4.2.1 | 0.498 | |
| 3of3 | DIH | Purine nucleoside phosphorylase DeoD-type 1 | / | 0.487 | |
| 4a86 | H35 | Major pollen allergen Bet v 1-A | / | 0.484 | |
| 3fow | IMH | Purine nucleoside phosphorylase | / | 0.483 | |
| 4a87 | NAR | Major pollen allergen Bet v 1-A | / | 0.475 | |
| 3l9m | L9M | cAMP-dependent protein kinase catalytic subunit alpha | 2.7.11.11 | 0.474 | |
| 3wv9 | FEG | Hmd co-occurring protein HcgE | / | 0.471 | |
| 1bk0 | ACV | Isopenicillin N synthase | 1.21.3.1 | 0.467 | |
| 3o4r | NAP | Dehydrogenase/reductase SDR family member 4 | 1.1.1.184 | 0.467 | |
| 4b6u | M7G | Eukaryotic translation initiation factor 4E type 3 | / | 0.466 | |
| 1nqu | RDL | 6,7-dimethyl-8-ribityllumazine synthase | 2.5.1.78 | 0.463 | |
| 2vbd | V10 | Isopenicillin N synthase | 1.21.3.1 | 0.462 | |
| 1hb1 | OCV | Isopenicillin N synthase | 1.21.3.1 | 0.460 | |
| 1hb3 | SCV | Isopenicillin N synthase | 1.21.3.1 | 0.460 | |
| 3p0f | BAU | Uridine phosphorylase 2 | 2.4.2.3 | 0.460 | |
| 3zoi | M2W | Isopenicillin N synthase | 1.21.3.1 | 0.459 | |
| 4e90 | 7RG | High affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A | / | 0.459 | |
| 4ts3 | FMC | Purine nucleoside phosphorylase DeoD-type | / | 0.459 | |
| 2bu9 | HFV | Isopenicillin N synthase | 1.21.3.1 | 0.458 | |
| 3l9l | L9L | cAMP-dependent protein kinase catalytic subunit alpha | 2.7.11.11 | 0.456 | |
| 3tda | PN0 | Cytochrome P450 2D6 | / | 0.455 | |
| 4ldl | XQC | Beta-2 adrenergic receptor | / | 0.455 | |
| 2bkt | RPF | Renin | 3.4.23.15 | 0.454 | |
| 2jb4 | A14 | Isopenicillin N synthase | 1.21.3.1 | 0.454 | |
| 2jdv | L20 | cAMP-dependent protein kinase catalytic subunit alpha | 2.7.11.11 | 0.454 | |
| 1jdt | MTA | Purine nucleoside phosphorylase | / | 0.453 | |
| 3gw9 | VNI | Lanosterol 14-alpha-demethylase | / | 0.452 | |
| 5bp9 | SAH | Putative methyltransferase protein | / | 0.452 | |
| 2ivp | ATP | tRNA N6-adenosine threonylcarbamoyltransferase | / | 0.450 | |
| 3ox4 | NAD | Alcohol dehydrogenase 2 | 1.1.1.1 | 0.450 | |
| 2bi4 | NAD | Lactaldehyde reductase | 1.1.1.77 | 0.449 | |
| 5d6l | CAU | Beta-2 adrenergic receptor | / | 0.449 | |
| 1w06 | W05 | Isopenicillin N synthase | 1.21.3.1 | 0.448 | |
| 2cle | F6F | Tryptophan synthase alpha chain | / | 0.448 | |
| 2fs4 | PZ1 | Renin | 3.4.23.15 | 0.448 | |
| 1qiq | ACC | Isopenicillin N synthase | 1.21.3.1 | 0.447 | |
| 2ivi | ACW | Isopenicillin N synthase | 1.21.3.1 | 0.446 | |
| 1obn | ASV | Isopenicillin N synthase | 1.21.3.1 | 0.445 | |
| 1pd9 | CO4 | Dihydrofolate reductase | 1.5.1.3 | 0.445 | |
| 1q0r | AKT | Aclacinomycin methylesterase RdmC | 3.1.1.95 | 0.444 | |
| 1xdd | AAY | Integrin alpha-L | / | 0.444 | |
| 3i5z | Z48 | Mitogen-activated protein kinase 1 | 2.7.11.24 | 0.444 | |
| 4ktl | 1CQ | Cytochrome P450 | / | 0.444 | |
| 1pqc | 444 | Oxysterols receptor LXR-beta | / | 0.442 | |
| 3gc8 | B45 | Mitogen-activated protein kinase 11 | 2.7.11.24 | 0.442 | |
| 4i4z | 2NE | 1,4-dihydroxy-2-naphthoyl-CoA synthase | / | 0.442 | |
| 3if9 | FAD | Glycine oxidase | 1.4.3.19 | 0.441 | |
| 3k3e | PDB | High affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A | / | 0.441 | |
| 4q71 | FAD | Bifunctional protein PutA | / | 0.441 | |
| 5c1m | CLR | Mu-type opioid receptor | / | 0.441 | |
| 4gbr | CAU | Beta-2 adrenergic receptor | / | 0.441 | |
| 1qjf | ACS | Isopenicillin N synthase | 1.21.3.1 | 0.440 | |
| 2g26 | 3LG | Renin | 3.4.23.15 | 0.440 |