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 |
|---|---|---|---|
| 3sai | 9DR | Dihydrofolate reductase |
| PDB ID | HET | Uniprot Name | EC Number | Binding Site Similarity |
Align |
|---|---|---|---|---|---|
| 3sai | 9DR | Dihydrofolate reductase | / | 1.000 | |
| 3sa1 | 6DR | Dihydrofolate reductase | / | 0.636 | |
| 3sa2 | 7DR | Dihydrofolate reductase | / | 0.611 | |
| 3jwc | EKB | Dihydrofolate reductase | / | 0.575 | |
| 3sh2 | 5DR | Dihydrofolate reductase | 1.5.1.3 | 0.548 | |
| 3jw5 | TOP | Dihydrofolate reductase | / | 0.547 | |
| 4dp3 | MMV | Bifunctional dihydrofolate reductase-thymidylate synthase | / | 0.545 | |
| 3cse | N22 | Uncharacterized protein | / | 0.542 | |
| 3td8 | D2R | Dihydrofolate reductase | 1.5.1.3 | 0.539 | |
| 3fre | TOP | Dihydrofolate reductase | 1.5.1.3 | 0.536 | |
| 4h98 | 14Q | Uncharacterized protein | / | 0.536 | |
| 3fyw | XCF | Dihydrofolate reductase | 1.5.1.3 | 0.535 | |
| 3qlz | QLZ | Uncharacterized protein | / | 0.535 | |
| 1klk | PMD | Dihydrofolate reductase | 1.5.1.3 | 0.527 | |
| 4elg | 52J | Dihydrofolate reductase | / | 0.526 | |
| 3eek | 53S | Uncharacterized protein | / | 0.525 | |
| 1j3i | WRA | Bifunctional dihydrofolate reductase-thymidylate synthase | 1.5.1.3 | 0.524 | |
| 1rx3 | MTX | Dihydrofolate reductase | 1.5.1.3 | 0.522 | |
| 1vj3 | TAB | Dihydrofolate reductase | 1.5.1.3 | 0.522 | |
| 2cd2 | FOL | Dihydrofolate reductase | 1.5.1.3 | 0.521 | |
| 4ele | 31I | Dihydrofolate reductase | / | 0.521 | |
| 3eem | 53V | Uncharacterized protein | / | 0.520 | |
| 3srq | Q19 | Dihydrofolate reductase | 1.5.1.3 | 0.520 | |
| 2bl9 | CP6 | Bifunctional dihydrofolate reductase-thymidylate synthase | 1.5.1.3 | 0.519 | |
| 3eej | 53R | Uncharacterized protein | / | 0.518 | |
| 3och | 2MX | Dihydrofolate reductase | 1.5.1.3 | 0.516 | |
| 1ddr | MTX | Dihydrofolate reductase | 1.5.1.3 | 0.515 | |
| 3dat | MTX | Dihydrofolate reductase | / | 0.515 | |
| 3frd | DHF | Dihydrofolate reductase | 1.5.1.3 | 0.515 | |
| 1dra | MTX | Dihydrofolate reductase | 1.5.1.3 | 0.511 | |
| 1cd2 | FOL | Dihydrofolate reductase | 1.5.1.3 | 0.510 | |
| 3qlx | QLR | Uncharacterized protein | / | 0.509 | |
| 4nx6 | FOL | Dihydrofolate reductase | 1.5.1.3 | 0.508 | |
| 1dds | MTX | Dihydrofolate reductase | 1.5.1.3 | 0.507 | |
| 4cd2 | FOL | Dihydrofolate reductase | 1.5.1.3 | 0.506 | |
| 2qk8 | MTX | Dihydrofolate reductase | / | 0.503 | |
| 4fgg | 0U5 | Dihydrofolate reductase | 1.5.1.3 | 0.503 | |
| 4h96 | 14Q | Dihydrofolate reductase | 1.5.1.3 | 0.502 | |
| 3um6 | 1CY | Bifunctional dihydrofolate reductase-thymidylate synthase | / | 0.501 | |
| 5ccc | DDF | Dihydrofolate reductase | 1.5.1.3 | 0.501 | |
| 3qlr | QLR | Dihydrofolate reductase | 1.5.1.3 | 0.500 | |
| 1re7 | FOL | Dihydrofolate reductase | 1.5.1.3 | 0.499 | |
| 2zza | FOL | Dihydrofolate reductase | / | 0.497 | |
| 2blc | CP7 | Bifunctional dihydrofolate reductase-thymidylate synthase | 1.5.1.3 | 0.496 | |
| 3irn | 1CY | Bifunctional dihydrofolate reductase-thymidylate synthase | 1.5.1.3 | 0.496 | |
| 1tdr | MTX | Dihydrofolate reductase | 1.5.1.3 | 0.495 | |
| 3fl8 | RAR | Dihydrofolate reductase | / | 0.494 | |
| 2w3v | TOP | Dihydrofolate reductase | / | 0.493 | |
| 3frf | XCF | Dihydrofolate reductase | 1.5.1.3 | 0.493 | |
| 1m78 | CLZ | Dihydrofolate reductase | 1.5.1.3 | 0.491 | |
| 4x5g | FOL | Dihydrofolate reductase | 1.5.1.3 | 0.491 | |
| 4x5f | FOL | Dihydrofolate reductase | 1.5.1.3 | 0.490 | |
| 1dg5 | TOP | Dihydrofolate reductase | 1.5.1.3 | 0.489 | |
| 1rx7 | FOL | Dihydrofolate reductase | 1.5.1.3 | 0.489 | |
| 2fzi | DH3 | Dihydrofolate reductase | 1.5.1.3 | 0.489 | |
| 3um5 | CP6 | Bifunctional dihydrofolate reductase-thymidylate synthase | / | 0.489 | |
| 1j3k | WRA | Bifunctional dihydrofolate reductase-thymidylate synthase | 1.5.1.3 | 0.488 | |
| 4elb | 34S | Dihydrofolate reductase | / | 0.488 | |
| 4ixe | IXE | Dihydrofolate reductase | 1.5.1.3 | 0.488 | |
| 4nx7 | FOL | Dihydrofolate reductase | 1.5.1.3 | 0.488 | |
| 3qfx | CP6 | Bifunctional dihydrofolate reductase-thymidylate synthase | 1.5.1.3 | 0.487 | |
| 4fgh | 0U6 | Dihydrofolate reductase | 1.5.1.3 | 0.486 | |
| 1rf7 | DHF | Dihydrofolate reductase | 1.5.1.3 | 0.484 | |
| 3kjs | DQ1 | Bifunctional dihydrofolate reductase-thymidylate synthase | / | 0.484 | |
| 4h97 | 53S | Dihydrofolate reductase | 1.5.1.3 | 0.484 | |
| 4p66 | MTX | Dihydrofolate reductase | / | 0.483 | |
| 1j3j | CP6 | Bifunctional dihydrofolate reductase-thymidylate synthase | 1.5.1.3 | 0.482 | |
| 2w3w | VG9 | Dihydrofolate reductase | / | 0.482 | |
| 3inv | C50 | Bifunctional dihydrofolate reductase-thymidylate synthase | 1.5.1.3 | 0.481 | |
| 4x5i | FOL | Dihydrofolate reductase | 1.5.1.3 | 0.481 | |
| 3fy9 | XCF | Dihydrofolate reductase | 1.5.1.3 | 0.480 | |
| 3irm | 1CY | Bifunctional dihydrofolate reductase-thymidylate synthase | 1.5.1.3 | 0.480 | |
| 4dph | P65 | Bifunctional dihydrofolate reductase-thymidylate synthase | / | 0.479 | |
| 3jsu | KA5 | Bifunctional dihydrofolate reductase-thymidylate synthase | / | 0.478 | |
| 2w9s | TOP | Dihydrofolate reductase type 1 from Tn4003 | 1.5.1.3 | 0.477 | |
| 3qly | 55V | Uncharacterized protein | / | 0.477 | |
| 1ia1 | TQ3 | Dihydrofolate reductase | 1.5.1.3 | 0.476 | |
| 2fzh | DH1 | Dihydrofolate reductase | 1.5.1.3 | 0.475 | |
| 3k47 | D09 | Dihydrofolate reductase | 1.5.1.3 | 0.475 | |
| 4dpd | DHF | Bifunctional dihydrofolate reductase-thymidylate synthase | / | 0.475 | |
| 2drc | MTX | Dihydrofolate reductase | 1.5.1.3 | 0.474 | |
| 1m7a | MQU | Dihydrofolate reductase | 1.5.1.3 | 0.473 | |
| 3dfr | MTX | Dihydrofolate reductase | 1.5.1.3 | 0.473 | |
| 1rx8 | FOL | Dihydrofolate reductase | 1.5.1.3 | 0.472 | |
| 1s3y | TQT | Dihydrofolate reductase | 1.5.1.3 | 0.472 | |
| 3iro | 2CY | Bifunctional dihydrofolate reductase-thymidylate synthase | 1.5.1.3 | 0.472 | |
| 3fy8 | XCF | Dihydrofolate reductase | 1.5.1.3 | 0.471 | |
| 3ia4 | MTX | Dihydrofolate reductase | / | 0.471 | |
| 3qls | 55V | Dihydrofolate reductase | 1.5.1.3 | 0.471 | |
| 1rd7 | FOL | Dihydrofolate reductase | 1.5.1.3 | 0.470 | |
| 3sgy | 06W | Dihydrofolate reductase | 1.5.1.3 | 0.470 | |
| 3srs | M23 | Dihydrofolate reductase | 1.5.1.3 | 0.470 | |
| 3tq9 | MTX | Dihydrofolate reductase | / | 0.470 | |
| 4m2x | TMQ | Dihydrofolate reductase | 1.5.1.3 | 0.470 | |
| 1ia3 | TQ5 | Dihydrofolate reductase | 1.5.1.3 | 0.469 | |
| 1hfp | MOT | Dihydrofolate reductase | 1.5.1.3 | 0.468 | |
| 3drc | MTX | Dihydrofolate reductase | 1.5.1.3 | 0.468 | |
| 3qgt | CP6 | Bifunctional dihydrofolate reductase-thymidylate synthase | / | 0.468 | |
| 1dyi | FOL | Dihydrofolate reductase | 1.5.1.3 | 0.467 | |
| 1dyj | DDF | Dihydrofolate reductase | 1.5.1.3 | 0.467 | |
| 3sru | Q26 | Dihydrofolate reductase | 1.5.1.3 | 0.467 | |
| 4l9k | EHF | Serum albumin | / | 0.467 | |
| 2bla | CP6 | Bifunctional dihydrofolate reductase-thymidylate synthase | 1.5.1.3 | 0.466 | |
| 1boz | PRD | Dihydrofolate reductase | 1.5.1.3 | 0.465 | |
| 1jol | FFO | Dihydrofolate reductase | 1.5.1.3 | 0.465 | |
| 1lud | TRR | Dihydrofolate reductase | 1.5.1.3 | 0.465 | |
| 2x7h | PFN | Prostaglandin reductase 3 | 1 | 0.465 | |
| 3dga | RJ1 | Bifunctional dihydrofolate reductase-thymidylate synthase | 1.5.1.3 | 0.464 | |
| 3r33 | 6ME | Dihydrofolate reductase | 1.5.1.3 | 0.464 | |
| 3sqy | Q11 | Dihydrofolate reductase | 1.5.1.3 | 0.464 | |
| 3tqb | FOL | Dihydrofolate reductase | / | 0.464 | |
| 4g8z | TOP | Dihydrofolate reductase | 1.5.1.3 | 0.464 | |
| 1ia4 | TQ6 | Dihydrofolate reductase | 1.5.1.3 | 0.463 | |
| 3qlw | N22 | Dihydrofolate reductase | 1.5.1.3 | 0.463 | |
| 1dhj | MTX | Dihydrofolate reductase | 1.5.1.3 | 0.462 | |
| 1ia2 | TQ4 | Dihydrofolate reductase | 1.5.1.3 | 0.462 | |
| 2w9g | TOP | Dihydrofolate reductase | 1.5.1.3 | 0.462 | |
| 3dau | MTX | Dihydrofolate reductase | 1.5.1.3 | 0.462 | |
| 4v12 | POG | MaoC like domain protein | / | 0.462 | |
| 3lu8 | IQX | Serum albumin | / | 0.461 | |
| 3nrr | D16 | Bifunctional dihydrofolate reductase-thymidylate synthase | / | 0.461 | |
| 3clb | TMQ | Bifunctional dihydrofolate reductase-thymidylate synthase | 1.5.1.3 | 0.460 | |
| 4j6c | STR | Cytochrome P450 monooxygenase | / | 0.460 | |
| 2y1o | T26 | UDP-N-acetylmuramoylalanine--D-glutamate ligase | 6.3.2.9 | 0.459 | |
| 3fra | I2H | Dihydrofolate reductase | 1.5.1.3 | 0.459 | |
| 3lfc | Z86 | Mitogen-activated protein kinase 14 | / | 0.459 | |
| 3eig | MTX | Dihydrofolate reductase | 1.5.1.3 | 0.458 | |
| 3srr | Q20 | Dihydrofolate reductase | 1.5.1.3 | 0.458 | |
| 3srw | Q27 | Dihydrofolate reductase | 1.5.1.3 | 0.457 | |
| 4ia7 | BIV | Vitamin D3 receptor A | / | 0.456 | |
| 1rx2 | FOL | Dihydrofolate reductase | 1.5.1.3 | 0.455 | |
| 3fyv | XCF | Dihydrofolate reductase | 1.5.1.3 | 0.455 | |
| 1rx5 | DDF | Dihydrofolate reductase | 1.5.1.3 | 0.454 | |
| 2wue | KEK | 4,5:9,10-diseco-3-hydroxy-5,9,17-trioxoandrosta-1(10),2-diene-4-oate hydrolase | 3.7.1.17 | 0.454 | |
| 5hi6 | MTX | Dihydrofolate reductase | / | 0.454 | |
| 1df7 | MTX | Dihydrofolate reductase | 1.5.1.3 | 0.453 | |
| 1dz6 | CAM | Camphor 5-monooxygenase | 1.14.15.1 | 0.453 | |
| 2blb | CP7 | Bifunctional dihydrofolate reductase-thymidylate synthase | 1.5.1.3 | 0.453 | |
| 3ql3 | FOL | Dihydrofolate reductase | 1.5.1.3 | 0.453 | |
| 3sgv | 2BJ | Ditrans,polycis-undecaprenyl-diphosphate synthase ((2E,6E)-farnesyl-diphosphate specific) | 2.5.1.31 | 0.453 | |
| 3vt7 | VDX | Vitamin D3 receptor | / | 0.453 | |
| 4fhb | FOL | Dihydrofolate reductase | 1.5.1.3 | 0.453 | |
| 4fjy | FJY | Phosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform | 2.7.1.153 | 0.453 | |
| 1aoe | GW3 | Dihydrofolate reductase | 1.5.1.3 | 0.452 | |
| 4ia1 | BIV | Vitamin D3 receptor A | / | 0.452 | |
| 4x5j | FOL | Dihydrofolate reductase | 1.5.1.3 | 0.452 | |
| 1drb | MTX | Dihydrofolate reductase | 1.5.1.3 | 0.451 | |
| 3a14 | NDP | 1-deoxy-D-xylulose 5-phosphate reductoisomerase | / | 0.451 | |
| 3dg8 | RJ6 | Bifunctional dihydrofolate reductase-thymidylate synthase | 1.5.1.3 | 0.451 | |
| 3l0l | HC3 | Nuclear receptor ROR-gamma | / | 0.451 | |
| 4elf | 35I | Dihydrofolate reductase | / | 0.451 | |
| 4dfr | MTX | Dihydrofolate reductase | 1.5.1.3 | 0.450 | |
| 4kfj | 1R0 | Dihydrofolate reductase | 1.5.1.3 | 0.450 | |
| 4mv4 | ACP | Biotin carboxylase | 6.3.4.14 | 0.450 | |
| 1ly3 | COG | Dihydrofolate reductase | 1.5.1.3 | 0.449 | |
| 4kd7 | 9DR | Dihydrofolate reductase | 1.5.1.3 | 0.449 | |
| 2qd4 | CHD | Ferrochelatase, mitochondrial | 4.99.1.1 | 0.448 | |
| 3m08 | RAR | Dihydrofolate reductase | 1.5.1.3 | 0.448 | |
| 7dfr | FOL | Dihydrofolate reductase | 1.5.1.3 | 0.448 | |
| 3c0g | 3AM | Peripheral plasma membrane protein CASK | 2.7.11.1 | 0.447 | |
| 4rbs | 0RV | Metallo-beta-lactamase type 2 | / | 0.447 | |
| 2oax | SNL | Mineralocorticoid receptor | / | 0.446 | |
| 3c3d | FO1 | 2-phospho-L-lactate transferase | / | 0.446 | |
| 2chw | 039 | Phosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform | 2.7.1.153 | 0.445 | |
| 2vn0 | TDZ | Cytochrome P450 2C8 | / | 0.445 | |
| 3l8s | BFF | Mitogen-activated protein kinase 14 | / | 0.445 | |
| 3tk3 | CPZ | Cytochrome P450 2B4 | 1.14.14.1 | 0.445 | |
| 3vt8 | YI3 | Vitamin D3 receptor | / | 0.445 | |
| 4kjj | FOL | Dihydrofolate reductase | 1.5.1.3 | 0.445 | |
| 1qzf | FOL | Bifunctional dihydrofolate reductase-thymidylate synthase | / | 0.444 | |
| 2nnh | REA | Cytochrome P450 2C8 | / | 0.444 | |
| 2cd8 | PXI | Cytochrome P450 monooxygenase PikC | / | 0.443 | |
| 2po7 | CHD | Ferrochelatase, mitochondrial | 4.99.1.1 | 0.443 | |
| 3cd2 | MTX | Dihydrofolate reductase | 1.5.1.3 | 0.443 | |
| 3fwj | CAM | Camphor 5-monooxygenase | 1.14.15.1 | 0.443 | |
| 1dyr | TOP | Dihydrofolate reductase | 1.5.1.3 | 0.442 | |
| 1ml6 | GBX | Glutathione S-transferase A2 | 2.5.1.18 | 0.442 | |
| 2cig | 1DG | Dihydrofolate reductase | 1.5.1.3 | 0.442 | |
| 3rg9 | WRA | Bifunctional dihydrofolate reductase-thymidylate synthase | 1.5.1.3 | 0.442 | |
| 3zlm | ANP | Adenosine monophosphate-protein transferase NmFic | 2.7.7.n1 | 0.442 | |
| 4ia3 | BIV | Vitamin D3 receptor A | / | 0.442 | |
| 4p68 | MTX | Dihydrofolate reductase | / | 0.442 | |
| 1rb3 | MTX | Dihydrofolate reductase | 1.5.1.3 | 0.441 | |
| 2bgi | FAD | NADPH:ferredoxin reductase | / | 0.441 | |
| 2w3a | TOP | Dihydrofolate reductase | 1.5.1.3 | 0.441 | |
| 3a4p | DFQ | Hepatocyte growth factor receptor | 2.7.10.1 | 0.441 | |
| 3njo | P2M | Abscisic acid receptor PYR1 | / | 0.441 | |
| 3qg2 | CP6 | Bifunctional dihydrofolate reductase-thymidylate synthase | / | 0.441 | |
| 4l8u | 9AZ | Serum albumin | / | 0.441 | |
| 1ra2 | FOL | Dihydrofolate reductase | 1.5.1.3 | 0.440 | |
| 2ph5 | NAD | Homospermidine synthase | / | 0.440 | |
| 2pr2 | DG1 | Enoyl-[acyl-carrier-protein] reductase [NADH] | 1.3.1.9 | 0.440 | |
| 4hw3 | 19G | Induced myeloid leukemia cell differentiation protein Mcl-1 | / | 0.440 | |
| 4ixf | IXF | Dihydrofolate reductase | 1.5.1.3 | 0.440 |