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 |
|---|---|---|---|
| 1dr4 | HBI | Dihydrofolate reductase | 1.5.1.3 |
| PDB ID | HET | Uniprot Name | EC Number | Binding Site Similarity |
Align |
|---|---|---|---|---|---|
| 1dr4 | HBI | Dihydrofolate reductase | 1.5.1.3 | 1.000 | |
| 1dr3 | HBI | Dihydrofolate reductase | 1.5.1.3 | 0.647 | |
| 2w3a | TOP | Dihydrofolate reductase | 1.5.1.3 | 0.627 | |
| 3nxt | D2E | Dihydrofolate reductase | 1.5.1.3 | 0.597 | |
| 3nxv | D2F | Dihydrofolate reductase | 1.5.1.3 | 0.592 | |
| 4kbn | 25U | Dihydrofolate reductase | 1.5.1.3 | 0.588 | |
| 4kak | 06U | Dihydrofolate reductase | 1.5.1.3 | 0.587 | |
| 4kd7 | 9DR | Dihydrofolate reductase | 1.5.1.3 | 0.586 | |
| 3k47 | D09 | Dihydrofolate reductase | 1.5.1.3 | 0.569 | |
| 3nxo | D2B | Dihydrofolate reductase | 1.5.1.3 | 0.567 | |
| 4kfj | 1R0 | Dihydrofolate reductase | 1.5.1.3 | 0.561 | |
| 3oaf | OAG | Dihydrofolate reductase | 1.5.1.3 | 0.558 | |
| 4g95 | OAG | Dihydrofolate reductase | 1.5.1.3 | 0.553 | |
| 1s3w | TQT | Dihydrofolate reductase | 1.5.1.3 | 0.538 | |
| 3nxr | D2D | Dihydrofolate reductase | 1.5.1.3 | 0.532 | |
| 4keb | FOL | Dihydrofolate reductase | 1.5.1.3 | 0.532 | |
| 3nxy | D2H | Dihydrofolate reductase | 1.5.1.3 | 0.530 | |
| 1boz | PRD | Dihydrofolate reductase | 1.5.1.3 | 0.526 | |
| 3l3r | OAG | Dihydrofolate reductase | 1.5.1.3 | 0.515 | |
| 3um5 | CP6 | Bifunctional dihydrofolate reductase-thymidylate synthase | / | 0.511 | |
| 3h4v | DVP | Pteridine reductase 1 | 1.5.1.33 | 0.504 | |
| 1s3u | TQD | Dihydrofolate reductase | 1.5.1.3 | 0.502 | |
| 3n0h | TOP | Dihydrofolate reductase | 1.5.1.3 | 0.502 | |
| 1hfr | MOT | Dihydrofolate reductase | 1.5.1.3 | 0.501 | |
| 1mvs | DTM | Dihydrofolate reductase | 1.5.1.3 | 0.500 | |
| 1ohj | COP | Dihydrofolate reductase | 1.5.1.3 | 0.499 | |
| 4ddr | MMV | Dihydrofolate reductase | 1.5.1.3 | 0.498 | |
| 1hfp | MOT | Dihydrofolate reductase | 1.5.1.3 | 0.496 | |
| 1hfq | MOT | Dihydrofolate reductase | 1.5.1.3 | 0.496 | |
| 3cse | N22 | Uncharacterized protein | / | 0.496 | |
| 2bl9 | CP6 | Bifunctional dihydrofolate reductase-thymidylate synthase | 1.5.1.3 | 0.492 | |
| 4zzi | 1NS | NAD-dependent protein deacetylase sirtuin-1 | 3.5.1 | 0.490 | |
| 1dg7 | WRB | Dihydrofolate reductase | 1.5.1.3 | 0.486 | |
| 1klk | PMD | Dihydrofolate reductase | 1.5.1.3 | 0.485 | |
| 3um6 | 1CY | Bifunctional dihydrofolate reductase-thymidylate synthase | / | 0.484 | |
| 4qjc | IXE | Dihydrofolate reductase | 1.5.1.3 | 0.484 | |
| 1s3v | TQD | Dihydrofolate reductase | 1.5.1.3 | 0.482 | |
| 4p68 | MTX | Dihydrofolate reductase | / | 0.482 | |
| 4x5f | FOL | Dihydrofolate reductase | 1.5.1.3 | 0.482 | |
| 3eej | 53R | Uncharacterized protein | / | 0.481 | |
| 3qlx | QLR | Uncharacterized protein | / | 0.480 | |
| 1u72 | MTX | Dihydrofolate reductase | 1.5.1.3 | 0.479 | |
| 4ixe | IXE | Dihydrofolate reductase | 1.5.1.3 | 0.479 | |
| 2dhf | DZF | Dihydrofolate reductase | 1.5.1.3 | 0.478 | |
| 1pd8 | CO4 | Dihydrofolate reductase | 1.5.1.3 | 0.474 | |
| 3irn | 1CY | Bifunctional dihydrofolate reductase-thymidylate synthase | 1.5.1.3 | 0.474 | |
| 4iaq | 2GM | 5-hydroxytryptamine receptor 1B | / | 0.473 | |
| 3eem | 53V | Uncharacterized protein | / | 0.472 | |
| 5dp2 | NAP | CurF | / | 0.470 | |
| 3dys | IBM | High affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A | / | 0.469 | |
| 3qfx | CP6 | Bifunctional dihydrofolate reductase-thymidylate synthase | 1.5.1.3 | 0.469 | |
| 5k2b | ZMA | Adenosine receptor A2a | / | 0.469 | |
| 3qgt | CP6 | Bifunctional dihydrofolate reductase-thymidylate synthase | / | 0.468 | |
| 4h98 | 14Q | Uncharacterized protein | / | 0.468 | |
| 1ia1 | TQ3 | Dihydrofolate reductase | 1.5.1.3 | 0.467 | |
| 3ihg | VAK | Aklavinone 12-hydroxylase RdmE | / | 0.467 | |
| 2cd2 | FOL | Dihydrofolate reductase | 1.5.1.3 | 0.466 | |
| 2rku | R78 | Serine/threonine-protein kinase PLK1 | 2.7.11.21 | 0.466 | |
| 4qa0 | SHH | Histone deacetylase 8 | 3.5.1.98 | 0.466 | |
| 3qlw | N22 | Dihydrofolate reductase | 1.5.1.3 | 0.465 | |
| 4cdm | FO1 | Deoxyribodipyrimidine photolyase | / | 0.465 | |
| 4h97 | 53S | Dihydrofolate reductase | 1.5.1.3 | 0.465 | |
| 5iu8 | 6DZ | Adenosine receptor A2a | / | 0.465 | |
| 1q0r | AKT | Aclacinomycin methylesterase RdmC | 3.1.1.95 | 0.463 | |
| 1ygj | RMC | Pyridoxal kinase | 2.7.1.35 | 0.463 | |
| 2xk8 | 5R1 | Serine/threonine-protein kinase Nek2 | 2.7.11.1 | 0.463 | |
| 1ygk | RRC | Pyridoxal kinase | 2.7.1.35 | 0.462 | |
| 2bla | CP6 | Bifunctional dihydrofolate reductase-thymidylate synthase | 1.5.1.3 | 0.462 | |
| 3irm | 1CY | Bifunctional dihydrofolate reductase-thymidylate synthase | 1.5.1.3 | 0.462 | |
| 3iro | 2CY | Bifunctional dihydrofolate reductase-thymidylate synthase | 1.5.1.3 | 0.462 | |
| 3qg2 | CP6 | Bifunctional dihydrofolate reductase-thymidylate synthase | / | 0.462 | |
| 5fd8 | A5A | Putative carboxypeptidase yocD | / | 0.462 | |
| 1e26 | GPB | Dihydrofolate reductase | 1.5.1.3 | 0.461 | |
| 3gyf | 51P | Dihydrofolate reductase | 1.5.1.3 | 0.461 | |
| 3hv3 | R49 | Mitogen-activated protein kinase 14 | / | 0.461 | |
| 3u8h | BHP | Phospholipase A2, membrane associated | / | 0.461 | |
| 3qly | 55V | Uncharacterized protein | / | 0.460 | |
| 4eil | FOL | Bifunctional dihydrofolate reductase-thymidylate synthase | 1.5.1.3 | 0.460 | |
| 4g8z | TOP | Dihydrofolate reductase | 1.5.1.3 | 0.460 | |
| 4iar | ERM | 5-hydroxytryptamine receptor 1B | / | 0.460 | |
| 4j6d | TES | Cytochrome P450 monooxygenase | / | 0.460 | |
| 1pd9 | CO4 | Dihydrofolate reductase | 1.5.1.3 | 0.459 | |
| 1pqc | 444 | Oxysterols receptor LXR-beta | / | 0.459 | |
| 3gie | ACP | Sensor histidine kinase DesK | 2.7.13.3 | 0.459 | |
| 2bfm | TOP | Pteridine reductase 1 | 1.5.1.33 | 0.458 | |
| 3qi4 | IBM | High affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A | / | 0.458 | |
| 4h96 | 14Q | Dihydrofolate reductase | 1.5.1.3 | 0.458 | |
| 1dlr | MXA | Dihydrofolate reductase | 1.5.1.3 | 0.457 | |
| 3d80 | Q22 | Dihydrofolate reductase | 1.5.1.3 | 0.457 | |
| 3nrr | D16 | Bifunctional dihydrofolate reductase-thymidylate synthase | / | 0.457 | |
| 2fzj | DH3 | Dihydrofolate reductase | 1.5.1.3 | 0.456 | |
| 3pm1 | ET | HTH-type transcriptional regulator QacR | / | 0.456 | |
| 4bfw | ZVW | Pantothenate kinase | 2.7.1.33 | 0.456 | |
| 5k2d | ZMA | Adenosine receptor A2a | / | 0.456 | |
| 3eml | ZMA | Adenosine receptor A2a | / | 0.456 | |
| 1pkf | EPD | Epothilone C/D epoxidase | 1.14 | 0.455 | |
| 1vrq | FON | Subunit alpha of sarocosine oxidase | / | 0.455 | |
| 2jc6 | QPP | Calcium/calmodulin-dependent protein kinase type 1D | 2.7.11.17 | 0.455 | |
| 3d73 | NBB | Pheromone-binding protein ASP1 | / | 0.455 | |
| 3gcq | 1BU | Mitogen-activated protein kinase 14 | / | 0.455 | |
| 3qlz | QLZ | Uncharacterized protein | / | 0.455 | |
| 1dhf | FOL | Dihydrofolate reductase | 1.5.1.3 | 0.454 | |
| 3qls | 55V | Dihydrofolate reductase | 1.5.1.3 | 0.454 | |
| 3vg9 | ZMA | Adenosine receptor A2a | / | 0.454 | |
| 1dg5 | TOP | Dihydrofolate reductase | 1.5.1.3 | 0.453 | |
| 1ry8 | RUT | Aldo-keto reductase family 1 member C3 | / | 0.453 | |
| 2uxo | TAC | HTH-type transcriptional regulator TtgR | / | 0.453 | |
| 3ghw | GHW | Dihydrofolate reductase | 1.5.1.3 | 0.453 | |
| 3ikt | NAD | Redox-sensing transcriptional repressor Rex | / | 0.453 | |
| 3s7a | 684 | Dihydrofolate reductase | 1.5.1.3 | 0.453 | |
| 4a4o | 664 | Serine/threonine-protein kinase PLK1 | 2.7.11.21 | 0.453 | |
| 4jlj | 1NM | Deoxycytidine kinase | 2.7.1.74 | 0.453 | |
| 4zzj | CNA | NAD-dependent protein deacetylase sirtuin-1 | 3.5.1 | 0.453 | |
| 1gt5 | BZQ | Odorant-binding protein | / | 0.452 | |
| 1m78 | CLZ | Dihydrofolate reductase | 1.5.1.3 | 0.452 | |
| 1uho | VDN | cGMP-specific 3',5'-cyclic phosphodiesterase | / | 0.452 | |
| 1xu9 | CPS | Corticosteroid 11-beta-dehydrogenase isozyme 1 | 1.1.1.146 | 0.452 | |
| 1zdw | FLV | Prenyltransferase | / | 0.452 | |
| 2io6 | 330 | Wee1-like protein kinase | 2.7.10.2 | 0.452 | |
| 2iod | MYC | Dihydroflavonol 4-reductase | 1.1.1.219 | 0.452 | |
| 3biz | 61E | Wee1-like protein kinase | 2.7.10.2 | 0.452 | |
| 3qm4 | PN0 | Cytochrome P450 2D6 | / | 0.452 | |
| 4b2g | V1N | Uncharacterized protein | / | 0.452 | |
| 5cc9 | DDF | Dihydrofolate reductase | 1.5.1.3 | 0.452 | |
| 1u71 | MXA | Dihydrofolate reductase | 1.5.1.3 | 0.451 | |
| 2ab8 | MTP | Adenosine kinase | 2.7.1.20 | 0.451 | |
| 3bv7 | NAP | 3-oxo-5-beta-steroid 4-dehydrogenase | / | 0.451 | |
| 3dy8 | IBM | High affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A | / | 0.451 | |
| 4dp3 | MMV | Bifunctional dihydrofolate reductase-thymidylate synthase | / | 0.451 | |
| 4i6h | 1C8 | Serine/threonine-protein kinase PLK2 | 2.7.11.21 | 0.451 | |
| 1ejb | INJ | 6,7-dimethyl-8-ribityllumazine synthase | 2.5.1.78 | 0.450 | |
| 1i5r | HYC | Estradiol 17-beta-dehydrogenase 1 | 1.1.1.62 | 0.450 | |
| 1kms | LIH | Dihydrofolate reductase | 1.5.1.3 | 0.450 | |
| 2ydo | ADN | Adenosine receptor A2a | / | 0.450 | |
| 3g4k | ROL | cAMP-specific 3',5'-cyclic phosphodiesterase 4D | 3.1.4.53 | 0.450 | |
| 3sni | 546 | cAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A | 3.1.4.17 | 0.450 | |
| 4b13 | X25 | Glycylpeptide N-tetradecanoyltransferase | / | 0.450 | |
| 4gh6 | LUO | High affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A | / | 0.450 | |
| 5k2a | ZMA | Adenosine receptor A2a | / | 0.450 | |
| 2ipj | FFA | Aldo-keto reductase family 1 member C2 | / | 0.449 | |
| 3h3t | 16H | Collagen type IV alpha-3-binding protein | / | 0.449 | |
| 3hbf | MYC | Flavonoid 3-O-glucosyltransferase | 2.4.1 | 0.449 | |
| 3zky | WT4 | Isopenicillin N synthase | 1.21.3.1 | 0.449 | |
| 4bbh | YBN | Glycylpeptide N-tetradecanoyltransferase | / | 0.449 | |
| 4iah | 1DX | Alr2278 protein | / | 0.449 | |
| 1mkd | ZAR | cAMP-specific 3',5'-cyclic phosphodiesterase 4D | 3.1.4.53 | 0.448 | |
| 1pq9 | 44B | Oxysterols receptor LXR-beta | / | 0.448 | |
| 1q9m | ROL | cAMP-specific 3',5'-cyclic phosphodiesterase 4D | 3.1.4.53 | 0.448 | |
| 2b8j | ADN | Class B acid phosphatase | 3.1.3.2 | 0.448 | |
| 2ovy | PFJ | cAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A | 3.1.4.17 | 0.448 | |
| 2zb8 | IMN | Prostaglandin reductase 2 | 1.3.1.48 | 0.448 | |
| 3itu | IBM | cGMP-dependent 3',5'-cyclic phosphodiesterase | 3.1.4.17 | 0.448 | |
| 5k2c | ZMA | Adenosine receptor A2a | / | 0.448 | |
| 2blc | CP7 | Bifunctional dihydrofolate reductase-thymidylate synthase | 1.5.1.3 | 0.447 | |
| 3fhx | PXL | Pyridoxal kinase | 2.7.1.35 | 0.447 | |
| 3gnc | QQQ | Glutaryl-CoA dehydrogenase | / | 0.447 | |
| 4f7i | NAD | 3-isopropylmalate dehydrogenase | 1.1.1.85 | 0.447 | |
| 4k37 | SAM | Anaerobic sulfatase-maturating enzyme | 1.8.98 | 0.447 | |
| 4ocv | ANP | Aminoglycoside phosphotransferase | / | 0.447 | |
| 1ry0 | PG2 | Aldo-keto reductase family 1 member C3 | / | 0.446 | |
| 1yhj | R6C | Pyridoxal kinase | 2.7.1.35 | 0.446 | |
| 2obx | INI | 6,7-dimethyl-8-ribityllumazine synthase 2 | 2.5.1.78 | 0.446 | |
| 2uag | UMA | UDP-N-acetylmuramoylalanine--D-glutamate ligase | 6.3.2.9 | 0.446 | |
| 3b9o | FMN | Alkane monoxygenase | / | 0.446 | |
| 3br3 | ET | HTH-type transcriptional regulator QacR | / | 0.446 | |
| 3inv | C50 | Bifunctional dihydrofolate reductase-thymidylate synthase | 1.5.1.3 | 0.446 | |
| 4a95 | 9MT | Glycylpeptide N-tetradecanoyltransferase | / | 0.446 | |
| 4g8c | C6L | Alpha/beta hydrolase fold protein | / | 0.446 | |
| 4u16 | 3C0 | Muscarinic acetylcholine receptor M3 | / | 0.446 | |
| 1df7 | MTX | Dihydrofolate reductase | 1.5.1.3 | 0.445 | |
| 1obn | ASV | Isopenicillin N synthase | 1.21.3.1 | 0.445 | |
| 1rpw | DID | HTH-type transcriptional regulator QacR | / | 0.445 | |
| 2in6 | 839 | Wee1-like protein kinase | 2.7.10.2 | 0.445 | |
| 2x7h | PFN | Prostaglandin reductase 3 | 1 | 0.445 | |
| 3n3z | IBM | High affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A | / | 0.445 | |
| 3sn7 | 540 | cAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A | 3.1.4.17 | 0.445 | |
| 4gi2 | NAP | Crotonyl-CoA carboxylase/reductase | / | 0.445 | |
| 4h95 | 06U | Dihydrofolate reductase | 1.5.1.3 | 0.445 | |
| 4jbt | ASD | Cytochrome P450 monooxygenase | / | 0.445 | |
| 4p9d | TMP | Deoxycytidylate deaminase | / | 0.445 | |
| 1p33 | MTX | Pteridine reductase 1 | 1.5.1.33 | 0.444 | |
| 2blb | CP7 | Bifunctional dihydrofolate reductase-thymidylate synthase | 1.5.1.3 | 0.444 | |
| 2xk3 | XK3 | Serine/threonine-protein kinase Nek2 | 2.7.11.1 | 0.444 | |
| 4heu | 15J | cAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A | 3.1.4.17 | 0.444 | |
| 5d7q | 4I5 | NAD-dependent protein deacetylase sirtuin-2 | 3.5.1 | 0.444 | |
| 5jtb | ZMA | Adenosine receptor A2a | / | 0.444 | |
| 1j3i | WRA | Bifunctional dihydrofolate reductase-thymidylate synthase | 1.5.1.3 | 0.443 | |
| 2yne | YNE | Glycylpeptide N-tetradecanoyltransferase | / | 0.443 | |
| 2z2w | 770 | Wee1-like protein kinase | 2.7.10.2 | 0.443 | |
| 3kjs | DQ1 | Bifunctional dihydrofolate reductase-thymidylate synthase | / | 0.443 | |
| 3pz2 | 3PZ | Geranylgeranyl transferase type-2 subunit beta | 2.5.1.60 | 0.443 | |
| 4bfv | ZVV | Pantothenate kinase | 2.7.1.33 | 0.443 | |
| 4bgi | I4I | Enoyl-[acyl-carrier-protein] reductase [NADH] | 1.3.1.9 | 0.443 | |
| 4ky4 | 04J | Bifunctional dihydrofolate reductase-thymidylate synthase | 1.5.1.3 | 0.443 | |
| 1p0p | BCH | Cholinesterase | 3.1.1.8 | 0.442 | |
| 1toi | HCI | Aspartate aminotransferase | 2.6.1.1 | 0.442 | |
| 2h44 | 7CA | cGMP-specific 3',5'-cyclic phosphodiesterase | / | 0.442 | |
| 2qd3 | CHD | Ferrochelatase, mitochondrial | 4.99.1.1 | 0.442 | |
| 2y6f | M9F | Isopenicillin N synthase | 1.21.3.1 | 0.442 | |
| 3arv | SAU | Chitinase A | / | 0.442 | |
| 3nj0 | PYV | Abscisic acid receptor PYL2 | / | 0.442 | |
| 3nu0 | 3TU | Dihydrofolate reductase | 1.5.1.3 | 0.442 | |
| 4bfy | ZVY | Pantothenate kinase | 2.7.1.33 | 0.442 | |
| 1xom | CIO | cAMP-specific 3',5'-cyclic phosphodiesterase 4D | 3.1.4.53 | 0.441 | |
| 1xon | PIL | cAMP-specific 3',5'-cyclic phosphodiesterase 4D | 3.1.4.53 | 0.441 | |
| 2ejz | SAH | Diphthine synthase | / | 0.441 | |
| 2ivp | ATP | tRNA N6-adenosine threonylcarbamoyltransferase | / | 0.441 | |
| 2j3j | HC4 | NADPH-dependent oxidoreductase 2-alkenal reductase | 1.3.1.74 | 0.441 | |
| 2vcm | M11 | Isopenicillin N synthase | 1.21.3.1 | 0.441 | |
| 2z7g | EH9 | Adenosine deaminase | 3.5.4.4 | 0.441 | |
| 3o56 | ZG1 | cAMP-specific 3',5'-cyclic phosphodiesterase 4B | 3.1.4.53 | 0.441 | |
| 3q9b | B3N | Acetylpolyamine amidohydrolase | / | 0.441 | |
| 4bb3 | KKA | Isopenicillin N synthase | 1.21.3.1 | 0.441 | |
| 4bwa | N0B | Pyrrolysine--tRNA ligase | / | 0.441 | |
| 4rlh | 0WE | Enoyl-[acyl-carrier-protein] reductase [NADH] | / | 0.441 | |
| 4z9r | NAD | Omega-3 polyunsaturated fatty acid synthase subunit PfaD | / | 0.441 | |
| 1syn | F89 | Thymidylate synthase | / | 0.440 | |
| 1upw | 444 | Oxysterols receptor LXR-beta | / | 0.440 | |
| 1xdd | AAY | Integrin alpha-L | / | 0.440 | |
| 2b82 | ADN | Class B acid phosphatase | 3.1.3.2 | 0.440 | |
| 2fs4 | PZ1 | Renin | 3.4.23.15 | 0.440 | |
| 2gpj | FAD | Siderophore-interacting protein | / | 0.440 | |
| 3dyl | PCG | High affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A | / | 0.440 | |
| 3eek | 53S | Uncharacterized protein | / | 0.440 | |
| 3g58 | 988 | cAMP-specific 3',5'-cyclic phosphodiesterase 4D | 3.1.4.53 | 0.440 | |
| 3iak | EV1 | cAMP-specific 3',5'-cyclic phosphodiesterase 4D | 3.1.4.53 | 0.440 | |
| 3qlr | QLR | Dihydrofolate reductase | 1.5.1.3 | 0.440 | |
| 4ajf | F03 | cAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A | 3.1.4.17 | 0.440 | |
| 4i6f | 1C7 | Serine/threonine-protein kinase PLK2 | 2.7.11.21 | 0.440 | |
| 4xbf | FAD | Lysine-specific histone demethylase 1A | 1 | 0.440 | |
| 5d1b | TSN | Histone deacetylase 8 | 3.5.1.98 | 0.440 |