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 |
|---|---|---|---|
| 4g8j | THM | Uridine phosphorylase |
| PDB ID | HET | Uniprot Name | EC Number | Binding Site Similarity |
Align |
|---|---|---|---|---|---|
| 4g8j | THM | Uridine phosphorylase | / | 1.000 | |
| 1u1g | BBB | Uridine phosphorylase | 2.4.2.3 | 0.567 | |
| 1u1f | 183 | Uridine phosphorylase | 2.4.2.3 | 0.557 | |
| 5c80 | URI | Uridine phosphorylase | / | 0.547 | |
| 4lzw | THM | Uridine phosphorylase | / | 0.535 | |
| 1u1c | BAU | Uridine phosphorylase | 2.4.2.3 | 0.509 | |
| 2hwu | URI | Uridine phosphorylase | 2.4.2.3 | 0.506 | |
| 1y1r | ANU | Uridine phosphorylase | 2.4.2.3 | 0.499 | |
| 3euf | BAU | Uridine phosphorylase 1 | / | 0.490 | |
| 3c74 | ANU | Uridine phosphorylase | 2.4.2.3 | 0.489 | |
| 1odj | GMP | Purine nucleoside phosphorylase | / | 0.487 | |
| 4dan | 2FA | Purine nucleoside phosphorylase DeoD-type | 2.4.2.1 | 0.486 | |
| 1jdt | MTA | Purine nucleoside phosphorylase | / | 0.485 | |
| 1je1 | GMP | Purine nucleoside phosphorylase | / | 0.483 | |
| 1tgv | 5UD | Uridine phosphorylase | 2.4.2.3 | 0.480 | |
| 3p0e | BAU | Uridine phosphorylase 2 | 2.4.2.3 | 0.475 | |
| 1u1d | 181 | Uridine phosphorylase | 2.4.2.3 | 0.471 | |
| 3a1c | ACP | Probable copper-exporting P-type ATPase A | 3.6.3.54 | 0.469 | |
| 3dyl | PCG | High affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A | / | 0.469 | |
| 1c3x | 8IG | Purine nucleoside phosphorylase | 2.4.2.1 | 0.468 | |
| 3v0p | 4GW | Histo-blood group ABO system transferase | / | 0.468 | |
| 1jdv | ADN | Purine nucleoside phosphorylase | / | 0.466 | |
| 3q43 | D66 | M1 family aminopeptidase | 3.4.11 | 0.465 | |
| 4hmv | WUB | Phenazine biosynthesis protein PhzG | 1.4 | 0.465 | |
| 1jdz | FMB | Purine nucleoside phosphorylase | / | 0.462 | |
| 3p0f | BAU | Uridine phosphorylase 2 | 2.4.2.3 | 0.461 | |
| 2anb | 5GP | Guanylate kinase | 2.7.4.8 | 0.458 | |
| 3wqm | B29 | Diterpene synthase | 3.1.7.8 | 0.458 | |
| 4e90 | 7RG | High affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A | / | 0.458 | |
| 3b1d | PLS | BetaC-S lyase | / | 0.457 | |
| 4i6g | FAD | Cryptochrome-2 | / | 0.457 | |
| 1n95 | HFP | Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha | / | 0.456 | |
| 1n95 | HFP | Protein farnesyltransferase subunit beta | 2.5.1.58 | 0.456 | |
| 4g2j | 0WF | High affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A | / | 0.454 | |
| 3dy8 | 5GP | High affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A | / | 0.453 | |
| 4gv4 | MEJ | Poly [ADP-ribose] polymerase 3 | 2.4.2.30 | 0.453 | |
| 2cjf | RP4 | 3-dehydroquinate dehydratase | 4.2.1.10 | 0.452 | |
| 3qe2 | FMN | NADPH--cytochrome P450 reductase | / | 0.452 | |
| 1ahg | TYR_PLP | Aspartate aminotransferase | 2.6.1.1 | 0.451 | |
| 2il2 | LIX | Renin | 3.4.23.15 | 0.451 | |
| 2whq | HI6 | Acetylcholinesterase | 3.1.1.7 | 0.451 | |
| 2g24 | 7IG | Renin | 3.4.23.15 | 0.450 | |
| 3dyn | PCG | High affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A | / | 0.450 | |
| 4u0s | ADP | Adenosine monophosphate-protein transferase FICD | 2.7.7.n1 | 0.450 | |
| 3vx4 | ATP | Putative ABC transporter, ATP-binding protein ComA | / | 0.449 | |
| 4ey6 | GNT | Acetylcholinesterase | 3.1.1.7 | 0.448 | |
| 5c1g | GDU | Histo-blood group ABO system transferase | / | 0.448 | |
| 2oap | ANP | Type II secretion system protein (GspE-2) | / | 0.447 | |
| 4dja | FAD | (6-4) photolyase | / | 0.447 | |
| 1pr4 | MTP | Purine nucleoside phosphorylase DeoD-type | / | 0.446 | |
| 3dh7 | FMN | Isopentenyl-diphosphate delta-isomerase | / | 0.446 | |
| 3hdy | GDU | UDP-galactopyranose mutase | / | 0.446 | |
| 1eio | GCH | Gastrotropin | / | 0.445 | |
| 1q0r | AKT | Aclacinomycin methylesterase RdmC | 3.1.1.95 | 0.445 | |
| 2bt4 | CA2 | 3-dehydroquinate dehydratase | 4.2.1.10 | 0.445 | |
| 2qw0 | 34Z | 4-chlorobenzoyl CoA ligase | / | 0.445 | |
| 2xys | SY9 | Soluble acetylcholine receptor | / | 0.445 | |
| 3jsi | WTC | High affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A | / | 0.445 | |
| 3qt6 | 2P0 | Mevalonate diphosphate decarboxylase | / | 0.445 | |
| 3slk | NDP | Polyketide synthase extender module 2 | / | 0.445 | |
| 1k9s | FM1 | Purine nucleoside phosphorylase DeoD-type | / | 0.444 | |
| 1kyx | CRM | 6,7-dimethyl-8-ribityllumazine synthase | 2.5.1.78 | 0.444 | |
| 1n95 | FTH | Protein farnesyltransferase subunit beta | 2.5.1.58 | 0.444 | |
| 2x7h | PFN | Prostaglandin reductase 3 | 1 | 0.444 | |
| 4ts9 | FMC | Purine nucleoside phosphorylase DeoD-type | / | 0.444 | |
| 1x2h | LPA | Lipoate-protein ligase A | 6.3.1.20 | 0.443 | |
| 2g1o | 2IG | Renin | 3.4.23.15 | 0.443 | |
| 2hk9 | NAP | Shikimate dehydrogenase (NADP(+)) | / | 0.443 | |
| 2xb8 | XNW | 3-dehydroquinate dehydratase | 4.2.1.10 | 0.443 | |
| 1k27 | MTM | S-methyl-5'-thioadenosine phosphorylase | / | 0.442 | |
| 2y1t | DUD | SPBc2 prophage-derived deoxyuridine 5'-triphosphate nucleotidohydrolase YosS | 3.6.1.23 | 0.442 | |
| 3h3q | H13 | Collagen type IV alpha-3-binding protein | / | 0.442 | |
| 3k3h | BYE | High affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A | / | 0.442 | |
| 3zky | WT4 | Isopenicillin N synthase | 1.21.3.1 | 0.442 | |
| 2xuo | TZ4 | Acetylcholinesterase | 3.1.1.7 | 0.441 | |
| 2zsa | ADP | Pantothenate kinase | 2.7.1.33 | 0.441 | |
| 3lqs | PSZ | D-alanine aminotransferase | 2.6.1.21 | 0.441 | |
| 4bfv | ZVV | Pantothenate kinase | 2.7.1.33 | 0.441 | |
| 4lh7 | 1X8 | DNA ligase | / | 0.441 | |
| 2g1r | 3IG | Renin | 3.4.23.15 | 0.440 | |
| 4arb | C57 | Acetylcholinesterase | 3.1.1.7 | 0.440 |