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 |
|---|---|---|---|
| 3ghv | GHC | Dihydrofolate reductase | 1.5.1.3 |
| PDB ID | HET | Uniprot Name | EC Number | Binding Site Similarity |
Align |
|---|---|---|---|---|---|
| 3ghv | GHC | Dihydrofolate reductase | 1.5.1.3 | 1.000 | |
| 3gi2 | GHW | Dihydrofolate reductase | 1.5.1.3 | 0.604 | |
| 1hfr | MOT | Dihydrofolate reductase | 1.5.1.3 | 0.577 | |
| 3ghw | GHW | Dihydrofolate reductase | 1.5.1.3 | 0.572 | |
| 4keb | FOL | Dihydrofolate reductase | 1.5.1.3 | 0.566 | |
| 2w3m | FOL | Dihydrofolate reductase | 1.5.1.3 | 0.561 | |
| 4eil | FOL | Bifunctional dihydrofolate reductase-thymidylate synthase | 1.5.1.3 | 0.561 | |
| 1kms | LIH | Dihydrofolate reductase | 1.5.1.3 | 0.558 | |
| 3l3r | OAG | Dihydrofolate reductase | 1.5.1.3 | 0.557 | |
| 4m6k | FOL | Dihydrofolate reductase | 1.5.1.3 | 0.555 | |
| 2fzj | DH3 | Dihydrofolate reductase | 1.5.1.3 | 0.540 | |
| 3gyf | 51P | Dihydrofolate reductase | 1.5.1.3 | 0.537 | |
| 3ntz | 3TZ | Dihydrofolate reductase | 1.5.1.3 | 0.537 | |
| 3qly | 55V | Uncharacterized protein | / | 0.534 | |
| 1u72 | MTX | Dihydrofolate reductase | 1.5.1.3 | 0.530 | |
| 3n0h | TOP | Dihydrofolate reductase | 1.5.1.3 | 0.530 | |
| 4ky4 | 04J | Bifunctional dihydrofolate reductase-thymidylate synthase | 1.5.1.3 | 0.523 | |
| 1kmv | LII | Dihydrofolate reductase | 1.5.1.3 | 0.520 | |
| 4m6l | 21V | Dihydrofolate reductase | 1.5.1.3 | 0.520 | |
| 3nu0 | 3TU | Dihydrofolate reductase | 1.5.1.3 | 0.517 | |
| 3d80 | Q22 | Dihydrofolate reductase | 1.5.1.3 | 0.513 | |
| 3s3v | TOP | Dihydrofolate reductase | 1.5.1.3 | 0.512 | |
| 2dhf | DZF | Dihydrofolate reductase | 1.5.1.3 | 0.511 | |
| 3jsu | KA5 | Bifunctional dihydrofolate reductase-thymidylate synthase | / | 0.511 | |
| 2fzi | DH3 | Dihydrofolate reductase | 1.5.1.3 | 0.508 | |
| 1vj3 | TAB | Dihydrofolate reductase | 1.5.1.3 | 0.505 | |
| 3td8 | D2R | Dihydrofolate reductase | 1.5.1.3 | 0.505 | |
| 1ohj | COP | Dihydrofolate reductase | 1.5.1.3 | 0.502 | |
| 1pd9 | CO4 | Dihydrofolate reductase | 1.5.1.3 | 0.502 | |
| 3cse | N22 | Uncharacterized protein | / | 0.501 | |
| 1ohk | COP | Dihydrofolate reductase | 1.5.1.3 | 0.499 | |
| 2fzh | DH1 | Dihydrofolate reductase | 1.5.1.3 | 0.499 | |
| 4kfj | 1R0 | Dihydrofolate reductase | 1.5.1.3 | 0.497 | |
| 1cd2 | FOL | Dihydrofolate reductase | 1.5.1.3 | 0.496 | |
| 1ly4 | COQ | Dihydrofolate reductase | 1.5.1.3 | 0.494 | |
| 4dpd | DHF | Bifunctional dihydrofolate reductase-thymidylate synthase | / | 0.493 | |
| 4h97 | 53S | Dihydrofolate reductase | 1.5.1.3 | 0.493 | |
| 3qlz | QLZ | Uncharacterized protein | / | 0.492 | |
| 1drf | FOL | Dihydrofolate reductase | 1.5.1.3 | 0.491 | |
| 3qlx | QLR | Uncharacterized protein | / | 0.488 | |
| 4ixe | IXE | Dihydrofolate reductase | 1.5.1.3 | 0.486 | |
| 1ly3 | COG | Dihydrofolate reductase | 1.5.1.3 | 0.485 | |
| 3nrr | D16 | Bifunctional dihydrofolate reductase-thymidylate synthase | / | 0.485 | |
| 4kfj | FOL | Dihydrofolate reductase | 1.5.1.3 | 0.485 | |
| 1pd8 | CO4 | Dihydrofolate reductase | 1.5.1.3 | 0.481 | |
| 3eem | 53V | Uncharacterized protein | / | 0.479 | |
| 4kak | 06U | Dihydrofolate reductase | 1.5.1.3 | 0.479 | |
| 1j3k | WRA | Bifunctional dihydrofolate reductase-thymidylate synthase | 1.5.1.3 | 0.478 | |
| 1mvt | DTM | Dihydrofolate reductase | 1.5.1.3 | 0.477 | |
| 1s3u | TQD | Dihydrofolate reductase | 1.5.1.3 | 0.477 | |
| 1e26 | GPB | Dihydrofolate reductase | 1.5.1.3 | 0.473 | |
| 1j3i | WRA | Bifunctional dihydrofolate reductase-thymidylate synthase | 1.5.1.3 | 0.473 | |
| 1hfq | MOT | Dihydrofolate reductase | 1.5.1.3 | 0.471 | |
| 4muw | 2F4 | cAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A | 3.1.4.17 | 0.471 | |
| 3cd2 | MTX | Dihydrofolate reductase | 1.5.1.3 | 0.470 | |
| 1dhf | FOL | Dihydrofolate reductase | 1.5.1.3 | 0.468 | |
| 3eej | 53R | Uncharacterized protein | / | 0.468 | |
| 1daj | MOT | Dihydrofolate reductase | 1.5.1.3 | 0.467 | |
| 4h95 | 06U | Dihydrofolate reductase | 1.5.1.3 | 0.463 | |
| 1dls | MTX | Dihydrofolate reductase | 1.5.1.3 | 0.462 | |
| 3aba | FLI | Cytochrome P450 | / | 0.462 | |
| 3k45 | 51P | Dihydrofolate reductase | 1.5.1.3 | 0.462 | |
| 4hf4 | 15H | cAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A | 3.1.4.17 | 0.462 | |
| 1u70 | MTX | Dihydrofolate reductase | 1.5.1.3 | 0.460 | |
| 1ygk | RRC | Pyridoxal kinase | 2.7.1.35 | 0.459 | |
| 4dph | P65 | Bifunctional dihydrofolate reductase-thymidylate synthase | / | 0.459 | |
| 4gtv | 7TR | Geranylgeranyl transferase type-2 subunit beta | 2.5.1.60 | 0.458 | |
| 3s7a | 684 | Dihydrofolate reductase | 1.5.1.3 | 0.457 | |
| 4ddl | 0JQ | cAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A | 3.1.4.17 | 0.456 | |
| 3clb | TMQ | Bifunctional dihydrofolate reductase-thymidylate synthase | 1.5.1.3 | 0.455 | |
| 3inv | C50 | Bifunctional dihydrofolate reductase-thymidylate synthase | 1.5.1.3 | 0.455 | |
| 3irx | UDR | Gag-Pol polyprotein | 2.7.7.49 | 0.455 | |
| 1obn | ASV | Isopenicillin N synthase | 1.21.3.1 | 0.454 | |
| 1q9m | ROL | cAMP-specific 3',5'-cyclic phosphodiesterase 4D | 3.1.4.53 | 0.454 | |
| 1ro6 | ROL | cAMP-specific 3',5'-cyclic phosphodiesterase 4B | 3.1.4.53 | 0.454 | |
| 1uho | VDN | cGMP-specific 3',5'-cyclic phosphodiesterase | / | 0.454 | |
| 4qa0 | SHH | Histone deacetylase 8 | 3.5.1.98 | 0.454 | |
| 2w3a | TOP | Dihydrofolate reductase | 1.5.1.3 | 0.453 | |
| 3sni | 546 | cAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A | 3.1.4.17 | 0.453 | |
| 1oc1 | ASV | Isopenicillin N synthase | 1.21.3.1 | 0.452 | |
| 3kjs | DQ1 | Bifunctional dihydrofolate reductase-thymidylate synthase | / | 0.452 | |
| 3o56 | ZG1 | cAMP-specific 3',5'-cyclic phosphodiesterase 4B | 3.1.4.53 | 0.452 | |
| 3qpn | PFK | cAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A | 3.1.4.17 | 0.452 | |
| 1blz | ACV | Isopenicillin N synthase | 1.21.3.1 | 0.451 | |
| 2yne | YNE | Glycylpeptide N-tetradecanoyltransferase | / | 0.451 | |
| 2po7 | CHD | Ferrochelatase, mitochondrial | 4.99.1.1 | 0.450 | |
| 3w1w | CHD | Ferrochelatase, mitochondrial | 4.99.1.1 | 0.450 | |
| 3eel | 53T | Uncharacterized protein | / | 0.449 | |
| 3g58 | 988 | cAMP-specific 3',5'-cyclic phosphodiesterase 4D | 3.1.4.53 | 0.449 | |
| 1o6r | R19 | Squalene--hopene cyclase | 4.2.1.129 | 0.448 | |
| 2bkt | RPF | Renin | 3.4.23.15 | 0.448 | |
| 2fs4 | PZ1 | Renin | 3.4.23.15 | 0.448 | |
| 4gts | 7TP | Geranylgeranyl transferase type-2 subunit beta | 2.5.1.60 | 0.448 | |
| 4h98 | 14Q | Uncharacterized protein | / | 0.448 | |
| 1xom | CIO | cAMP-specific 3',5'-cyclic phosphodiesterase 4D | 3.1.4.53 | 0.447 | |
| 2cd2 | FOL | Dihydrofolate reductase | 1.5.1.3 | 0.447 | |
| 2y6f | M9F | Isopenicillin N synthase | 1.21.3.1 | 0.447 | |
| 3c72 | CX1 | Geranylgeranyl transferase type-2 subunit beta | 2.5.1.60 | 0.447 | |
| 3eek | 53S | Uncharacterized protein | / | 0.447 | |
| 1qiq | ACC | Isopenicillin N synthase | 1.21.3.1 | 0.445 | |
| 1tbb | ROL | cAMP-specific 3',5'-cyclic phosphodiesterase 4D | 3.1.4.53 | 0.445 | |
| 1zkn | IBM | cAMP-specific 3',5'-cyclic phosphodiesterase 4D | 3.1.4.53 | 0.444 | |
| 1mkd | ZAR | cAMP-specific 3',5'-cyclic phosphodiesterase 4D | 3.1.4.53 | 0.443 | |
| 2bu9 | HFV | Isopenicillin N synthase | 1.21.3.1 | 0.443 | |
| 3ey4 | 352 | Corticosteroid 11-beta-dehydrogenase isozyme 1 | 1.1.1.146 | 0.443 | |
| 4mvh | 2F5 | cAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A | 3.1.4.17 | 0.443 | |
| 1mvs | DTM | Dihydrofolate reductase | 1.5.1.3 | 0.442 | |
| 1uzw | CDH | Isopenicillin N synthase | 1.21.3.1 | 0.442 | |
| 3g4k | ROL | cAMP-specific 3',5'-cyclic phosphodiesterase 4D | 3.1.4.53 | 0.442 | |
| 3hxb | BD5 | Geranylgeranyl transferase type-2 subunit beta | 2.5.1.60 | 0.442 | |
| 4c1i | EH9 | cGMP-dependent 3',5'-cyclic phosphodiesterase | 3.1.4.17 | 0.442 | |
| 1o6q | R17 | Squalene--hopene cyclase | 4.2.1.129 | 0.441 | |
| 1ro9 | 8BR | cAMP-specific 3',5'-cyclic phosphodiesterase 4B | 3.1.4.53 | 0.441 | |
| 1s3v | TQD | Dihydrofolate reductase | 1.5.1.3 | 0.441 | |
| 1so2 | 666 | cGMP-inhibited 3',5'-cyclic phosphodiesterase B | 3.1.4.17 | 0.441 | |
| 2fm0 | M98 | cAMP-specific 3',5'-cyclic phosphodiesterase 4D | 3.1.4.53 | 0.441 | |
| 2fm5 | M99 | cAMP-specific 3',5'-cyclic phosphodiesterase 4D | 3.1.4.53 | 0.441 | |
| 3qak | UKA | Adenosine receptor A2a | / | 0.441 | |
| 1ejb | INJ | 6,7-dimethyl-8-ribityllumazine synthase | 2.5.1.78 | 0.440 | |
| 2psj | CEI | Renilla-luciferin 2-monooxygenase | 1.13.12.5 | 0.440 | |
| 2wey | EV1 | cAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A | 3.1.4.17 | 0.440 | |
| 3iro | 2CY | Bifunctional dihydrofolate reductase-thymidylate synthase | 1.5.1.3 | 0.440 | |
| 3sn7 | 540 | cAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A | 3.1.4.17 | 0.440 |