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 |
|---|---|---|---|
| 3qlz | QLZ | Uncharacterized protein |
| PDB ID | HET | Uniprot Name | EC Number | Binding Site Similarity |
Align |
|---|---|---|---|---|---|
| 3qlz | QLZ | Uncharacterized protein | / | 1.000 | |
| 3eek | 53S | Uncharacterized protein | / | 0.780 | |
| 3eel | 53T | Uncharacterized protein | / | 0.737 | |
| 3cse | N22 | Uncharacterized protein | / | 0.722 | |
| 4h98 | 14Q | Uncharacterized protein | / | 0.695 | |
| 3eej | 53R | Uncharacterized protein | / | 0.688 | |
| 3qly | 55V | Uncharacterized protein | / | 0.650 | |
| 3eem | 53V | Uncharacterized protein | / | 0.627 | |
| 4h95 | 06U | Dihydrofolate reductase | 1.5.1.3 | 0.609 | |
| 3kjs | DQ1 | Bifunctional dihydrofolate reductase-thymidylate synthase | / | 0.601 | |
| 3td8 | D2R | Dihydrofolate reductase | 1.5.1.3 | 0.601 | |
| 1vj3 | TAB | Dihydrofolate reductase | 1.5.1.3 | 0.600 | |
| 3qlx | QLR | Uncharacterized protein | / | 0.597 | |
| 2fzi | DH3 | Dihydrofolate reductase | 1.5.1.3 | 0.595 | |
| 1cd2 | FOL | Dihydrofolate reductase | 1.5.1.3 | 0.590 | |
| 4ixe | IXE | Dihydrofolate reductase | 1.5.1.3 | 0.588 | |
| 1j3i | WRA | Bifunctional dihydrofolate reductase-thymidylate synthase | 1.5.1.3 | 0.584 | |
| 3dga | RJ1 | Bifunctional dihydrofolate reductase-thymidylate synthase | 1.5.1.3 | 0.571 | |
| 2fzh | DH1 | Dihydrofolate reductase | 1.5.1.3 | 0.568 | |
| 3inv | C50 | Bifunctional dihydrofolate reductase-thymidylate synthase | 1.5.1.3 | 0.564 | |
| 2cd2 | FOL | Dihydrofolate reductase | 1.5.1.3 | 0.555 | |
| 2w3v | TOP | Dihydrofolate reductase | / | 0.554 | |
| 4h96 | 14Q | Dihydrofolate reductase | 1.5.1.3 | 0.554 | |
| 1m7a | MQU | Dihydrofolate reductase | 1.5.1.3 | 0.553 | |
| 3jsu | KA5 | Bifunctional dihydrofolate reductase-thymidylate synthase | / | 0.553 | |
| 3qlr | QLR | Dihydrofolate reductase | 1.5.1.3 | 0.553 | |
| 4xe6 | 06U | Dihydrofolate reductase | 1.5.1.3 | 0.553 | |
| 3qls | 55V | Dihydrofolate reductase | 1.5.1.3 | 0.550 | |
| 4dph | P65 | Bifunctional dihydrofolate reductase-thymidylate synthase | / | 0.544 | |
| 1j3k | WRA | Bifunctional dihydrofolate reductase-thymidylate synthase | 1.5.1.3 | 0.543 | |
| 3iro | 2CY | Bifunctional dihydrofolate reductase-thymidylate synthase | 1.5.1.3 | 0.542 | |
| 4dpd | DHF | Bifunctional dihydrofolate reductase-thymidylate synthase | / | 0.542 | |
| 4m2x | TMQ | Dihydrofolate reductase | 1.5.1.3 | 0.542 | |
| 4cd2 | FOL | Dihydrofolate reductase | 1.5.1.3 | 0.541 | |
| 4h97 | 53S | Dihydrofolate reductase | 1.5.1.3 | 0.538 | |
| 3cd2 | MTX | Dihydrofolate reductase | 1.5.1.3 | 0.537 | |
| 1rx3 | MTX | Dihydrofolate reductase | 1.5.1.3 | 0.533 | |
| 1daj | MOT | Dihydrofolate reductase | 1.5.1.3 | 0.532 | |
| 3qlw | N22 | Dihydrofolate reductase | 1.5.1.3 | 0.530 | |
| 4kfj | 1R0 | Dihydrofolate reductase | 1.5.1.3 | 0.529 | |
| 1hfq | MOT | Dihydrofolate reductase | 1.5.1.3 | 0.524 | |
| 4kak | 06U | Dihydrofolate reductase | 1.5.1.3 | 0.524 | |
| 1s3y | TQT | Dihydrofolate reductase | 1.5.1.3 | 0.523 | |
| 1aoe | GW3 | Dihydrofolate reductase | 1.5.1.3 | 0.522 | |
| 3ia4 | MTX | Dihydrofolate reductase | / | 0.522 | |
| 3qfx | CP6 | Bifunctional dihydrofolate reductase-thymidylate synthase | 1.5.1.3 | 0.522 | |
| 3um5 | CP6 | Bifunctional dihydrofolate reductase-thymidylate synthase | / | 0.520 | |
| 2blc | CP7 | Bifunctional dihydrofolate reductase-thymidylate synthase | 1.5.1.3 | 0.519 | |
| 4fgg | 0U5 | Dihydrofolate reductase | 1.5.1.3 | 0.519 | |
| 1ly3 | COG | Dihydrofolate reductase | 1.5.1.3 | 0.518 | |
| 1dg7 | WRB | Dihydrofolate reductase | 1.5.1.3 | 0.515 | |
| 1m78 | CLZ | Dihydrofolate reductase | 1.5.1.3 | 0.515 | |
| 3srq | Q19 | Dihydrofolate reductase | 1.5.1.3 | 0.515 | |
| 1dds | MTX | Dihydrofolate reductase | 1.5.1.3 | 0.514 | |
| 1dg5 | TOP | Dihydrofolate reductase | 1.5.1.3 | 0.514 | |
| 3jwm | 5WB | Dihydrofolate reductase | / | 0.509 | |
| 4kbn | 25U | Dihydrofolate reductase | 1.5.1.3 | 0.509 | |
| 3eig | MTX | Dihydrofolate reductase | 1.5.1.3 | 0.508 | |
| 3sa2 | 7DR | Dihydrofolate reductase | / | 0.508 | |
| 4ixf | IXF | Dihydrofolate reductase | 1.5.1.3 | 0.508 | |
| 1ly4 | COQ | Dihydrofolate reductase | 1.5.1.3 | 0.507 | |
| 1hfp | MOT | Dihydrofolate reductase | 1.5.1.3 | 0.505 | |
| 1j3j | CP6 | Bifunctional dihydrofolate reductase-thymidylate synthase | 1.5.1.3 | 0.504 | |
| 2bl9 | CP6 | Bifunctional dihydrofolate reductase-thymidylate synthase | 1.5.1.3 | 0.503 | |
| 3clb | TMQ | Bifunctional dihydrofolate reductase-thymidylate synthase | 1.5.1.3 | 0.502 | |
| 1df7 | MTX | Dihydrofolate reductase | 1.5.1.3 | 0.500 | |
| 3k47 | D09 | Dihydrofolate reductase | 1.5.1.3 | 0.500 | |
| 3tq9 | MTX | Dihydrofolate reductase | / | 0.500 | |
| 3um6 | 1CY | Bifunctional dihydrofolate reductase-thymidylate synthase | / | 0.499 | |
| 3sh2 | 5DR | Dihydrofolate reductase | 1.5.1.3 | 0.498 | |
| 4eil | FOL | Bifunctional dihydrofolate reductase-thymidylate synthase | 1.5.1.3 | 0.497 | |
| 4m6l | 21V | Dihydrofolate reductase | 1.5.1.3 | 0.497 | |
| 5ccc | DDF | Dihydrofolate reductase | 1.5.1.3 | 0.497 | |
| 3jwc | EKB | Dihydrofolate reductase | / | 0.496 | |
| 3sai | 9DR | Dihydrofolate reductase | / | 0.496 | |
| 3sa1 | 6DR | Dihydrofolate reductase | / | 0.495 | |
| 3dfr | MTX | Dihydrofolate reductase | 1.5.1.3 | 0.494 | |
| 3fyw | XCF | Dihydrofolate reductase | 1.5.1.3 | 0.494 | |
| 4x5f | FOL | Dihydrofolate reductase | 1.5.1.3 | 0.494 | |
| 3frd | DHF | Dihydrofolate reductase | 1.5.1.3 | 0.492 | |
| 4p66 | MTX | Dihydrofolate reductase | / | 0.492 | |
| 1e26 | GPB | Dihydrofolate reductase | 1.5.1.3 | 0.490 | |
| 1ia1 | TQ3 | Dihydrofolate reductase | 1.5.1.3 | 0.490 | |
| 3tqb | FOL | Dihydrofolate reductase | / | 0.490 | |
| 4g8z | TOP | Dihydrofolate reductase | 1.5.1.3 | 0.489 | |
| 2bla | CP6 | Bifunctional dihydrofolate reductase-thymidylate synthase | 1.5.1.3 | 0.488 | |
| 4kd7 | 9DR | Dihydrofolate reductase | 1.5.1.3 | 0.488 | |
| 2w9s | TOP | Dihydrofolate reductase type 1 from Tn4003 | 1.5.1.3 | 0.487 | |
| 2zza | FOL | Dihydrofolate reductase | / | 0.487 | |
| 2w3w | VG9 | Dihydrofolate reductase | / | 0.486 | |
| 4ixg | IXG | Dihydrofolate reductase | 1.5.1.3 | 0.486 | |
| 3rg9 | WRA | Bifunctional dihydrofolate reductase-thymidylate synthase | 1.5.1.3 | 0.484 | |
| 3l3r | OAG | Dihydrofolate reductase | 1.5.1.3 | 0.481 | |
| 3fre | TOP | Dihydrofolate reductase | 1.5.1.3 | 0.480 | |
| 3oaf | OAG | Dihydrofolate reductase | 1.5.1.3 | 0.480 | |
| 3fl8 | RAR | Dihydrofolate reductase | / | 0.479 | |
| 3qg2 | CP6 | Bifunctional dihydrofolate reductase-thymidylate synthase | / | 0.479 | |
| 2w3a | TOP | Dihydrofolate reductase | 1.5.1.3 | 0.478 | |
| 4nx7 | FOL | Dihydrofolate reductase | 1.5.1.3 | 0.478 | |
| 1ddr | MTX | Dihydrofolate reductase | 1.5.1.3 | 0.476 | |
| 3d80 | Q22 | Dihydrofolate reductase | 1.5.1.3 | 0.476 | |
| 1rb3 | MTX | Dihydrofolate reductase | 1.5.1.3 | 0.475 | |
| 3ix9 | MTX | Dihydrofolate reductase | 1.5.1.3 | 0.475 | |
| 4fjy | FJY | Phosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform | 2.7.1.153 | 0.475 | |
| 3qgt | CP6 | Bifunctional dihydrofolate reductase-thymidylate synthase | / | 0.474 | |
| 1s3w | TQT | Dihydrofolate reductase | 1.5.1.3 | 0.473 | |
| 4ele | 31I | Dihydrofolate reductase | / | 0.473 | |
| 1boz | PRD | Dihydrofolate reductase | 1.5.1.3 | 0.472 | |
| 4ky4 | 04J | Bifunctional dihydrofolate reductase-thymidylate synthase | 1.5.1.3 | 0.472 | |
| 4nx6 | FOL | Dihydrofolate reductase | 1.5.1.3 | 0.472 | |
| 4x5g | FOL | Dihydrofolate reductase | 1.5.1.3 | 0.472 | |
| 1re7 | FOL | Dihydrofolate reductase | 1.5.1.3 | 0.471 | |
| 3o56 | ZG1 | cAMP-specific 3',5'-cyclic phosphodiesterase 4B | 3.1.4.53 | 0.470 | |
| 3frf | XCF | Dihydrofolate reductase | 1.5.1.3 | 0.469 | |
| 3jw5 | TOP | Dihydrofolate reductase | / | 0.468 | |
| 1rf7 | DHF | Dihydrofolate reductase | 1.5.1.3 | 0.467 | |
| 3irn | 1CY | Bifunctional dihydrofolate reductase-thymidylate synthase | 1.5.1.3 | 0.467 | |
| 4j6d | TES | Cytochrome P450 monooxygenase | / | 0.467 | |
| 2fzj | DH3 | Dihydrofolate reductase | 1.5.1.3 | 0.466 | |
| 3fra | I2H | Dihydrofolate reductase | 1.5.1.3 | 0.466 | |
| 4nky | 3QZ | Steroid 17-alpha-hydroxylase/17,20 lyase | / | 0.466 | |
| 3nxv | D2F | Dihydrofolate reductase | 1.5.1.3 | 0.465 | |
| 1kzj | CB3 | Thymidylate synthase | / | 0.463 | |
| 3i8a | N22 | Dihydrofolate reductase | 1.5.1.3 | 0.463 | |
| 4jib | 1L6 | cGMP-dependent 3',5'-cyclic phosphodiesterase | 3.1.4.17 | 0.463 | |
| 1m13 | HYF | Nuclear receptor subfamily 1 group I member 2 | / | 0.462 | |
| 3nxo | D2B | Dihydrofolate reductase | 1.5.1.3 | 0.462 | |
| 3ghv | GHC | Dihydrofolate reductase | 1.5.1.3 | 0.461 | |
| 1dra | MTX | Dihydrofolate reductase | 1.5.1.3 | 0.459 | |
| 2nnh | REA | Cytochrome P450 2C8 | / | 0.458 | |
| 3nxt | D2E | Dihydrofolate reductase | 1.5.1.3 | 0.458 | |
| 4ia2 | BIV | Vitamin D3 receptor A | / | 0.458 | |
| 2blb | CP7 | Bifunctional dihydrofolate reductase-thymidylate synthase | 1.5.1.3 | 0.457 | |
| 3s7a | 684 | Dihydrofolate reductase | 1.5.1.3 | 0.457 | |
| 4ia1 | BIV | Vitamin D3 receptor A | / | 0.457 | |
| 4ia7 | BIV | Vitamin D3 receptor A | / | 0.457 | |
| 4mvh | 2F5 | cAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A | 3.1.4.17 | 0.457 | |
| 5hs1 | VOR | Lanosterol 14-alpha demethylase | / | 0.456 | |
| 1jol | FFO | Dihydrofolate reductase | 1.5.1.3 | 0.454 | |
| 4x5j | FOL | Dihydrofolate reductase | 1.5.1.3 | 0.454 | |
| 1dyr | TOP | Dihydrofolate reductase | 1.5.1.3 | 0.453 | |
| 1ohk | COP | Dihydrofolate reductase | 1.5.1.3 | 0.453 | |
| 3ntz | 3TZ | Dihydrofolate reductase | 1.5.1.3 | 0.453 | |
| 1pq9 | 44B | Oxysterols receptor LXR-beta | / | 0.452 | |
| 2drc | MTX | Dihydrofolate reductase | 1.5.1.3 | 0.452 | |
| 2hcd | BIV | Vitamin D3 receptor A | / | 0.452 | |
| 3fy9 | XCF | Dihydrofolate reductase | 1.5.1.3 | 0.452 | |
| 3itu | IBM | cGMP-dependent 3',5'-cyclic phosphodiesterase | 3.1.4.17 | 0.452 | |
| 1fp1 | HCC | Isoliquiritigenin 2'-O-methyltransferase | / | 0.451 | |
| 2vzm | NRB | Cytochrome P450 monooxygenase PikC | / | 0.451 | |
| 4ej1 | FOL | Dihydrofolate reductase | 1.5.1.3 | 0.451 | |
| 4elg | 52J | Dihydrofolate reductase | / | 0.451 | |
| 3drc | MTX | Dihydrofolate reductase | 1.5.1.3 | 0.450 | |
| 3sgy | 06W | Dihydrofolate reductase | 1.5.1.3 | 0.450 | |
| 4elb | 34S | Dihydrofolate reductase | / | 0.450 | |
| 5hi6 | MTX | Dihydrofolate reductase | / | 0.450 | |
| 1hfr | MOT | Dihydrofolate reductase | 1.5.1.3 | 0.449 | |
| 2chw | 039 | Phosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform | 2.7.1.153 | 0.449 | |
| 3dau | MTX | Dihydrofolate reductase | 1.5.1.3 | 0.449 | |
| 3vtd | TKD | Vitamin D3 receptor | / | 0.449 | |
| 2z97 | CAM | Camphor 5-monooxygenase | 1.14.15.1 | 0.448 | |
| 3cv9 | VDX | Vitamin D3 dihydroxylase | / | 0.448 | |
| 4fgh | 0U6 | Dihydrofolate reductase | 1.5.1.3 | 0.448 | |
| 4jlj | 1NM | Deoxycytidine kinase | 2.7.1.74 | 0.448 | |
| 1drb | MTX | Dihydrofolate reductase | 1.5.1.3 | 0.447 | |
| 4j6b | PLO | Cytochrome P450 monooxygenase | / | 0.447 | |
| 2y30 | SM8 | Putative repressor SimReg2 | / | 0.446 | |
| 3ezp | B3N | Histone deacetylase 8 | 3.5.1.98 | 0.446 | |
| 3irm | 1CY | Bifunctional dihydrofolate reductase-thymidylate synthase | 1.5.1.3 | 0.446 | |
| 3lu8 | IQX | Serum albumin | / | 0.446 | |
| 3och | 2MX | Dihydrofolate reductase | 1.5.1.3 | 0.446 | |
| 3tda | PN0 | Cytochrome P450 2D6 | / | 0.446 | |
| 4fcd | 0T6 | cAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A | 3.1.4.17 | 0.446 | |
| 1e1n | FAD | NADPH:adrenodoxin oxidoreductase, mitochondrial | 1.18.1.6 | 0.445 | |
| 1txi | TX5 | Vitamin D3 receptor | / | 0.445 | |
| 3aba | FLI | Cytochrome P450 | / | 0.445 | |
| 4j03 | FVS | Bifunctional epoxide hydrolase 2 | 3.1.3.76 | 0.445 | |
| 4j6c | STR | Cytochrome P450 monooxygenase | / | 0.445 | |
| 4lt6 | 3AT | Poly(A) polymerase gamma | 2.7.7.19 | 0.445 | |
| 4x5i | FOL | Dihydrofolate reductase | 1.5.1.3 | 0.445 | |
| 5dc5 | B3N | Histone deacetylase 8 | 3.5.1.98 | 0.445 | |
| 1fmj | RTL | Retinol dehydratase | / | 0.444 | |
| 1rx7 | FOL | Dihydrofolate reductase | 1.5.1.3 | 0.444 | |
| 1tdr | MTX | Dihydrofolate reductase | 1.5.1.3 | 0.444 | |
| 2y1o | T26 | UDP-N-acetylmuramoylalanine--D-glutamate ligase | 6.3.2.9 | 0.444 | |
| 2ibz | SMA | Cytochrome b | / | 0.443 | |
| 3qm4 | PN0 | Cytochrome P450 2D6 | / | 0.443 | |
| 3vtc | TK3 | Vitamin D3 receptor | / | 0.443 | |
| 4dfr | MTX | Dihydrofolate reductase | 1.5.1.3 | 0.443 | |
| 4nkv | AER | Steroid 17-alpha-hydroxylase/17,20 lyase | / | 0.443 | |
| 1og5 | SWF | Cytochrome P450 2C9 | / | 0.442 | |
| 3dg8 | RJ6 | Bifunctional dihydrofolate reductase-thymidylate synthase | 1.5.1.3 | 0.442 | |
| 3v94 | WYQ | Phosphodiesterase | / | 0.442 | |
| 4hw3 | 19G | Induced myeloid leukemia cell differentiation protein Mcl-1 | / | 0.442 | |
| 1diu | BDM | Dihydrofolate reductase | 1.5.1.3 | 0.441 | |
| 1kb9 | SMA | Cytochrome b | / | 0.441 | |
| 1rx5 | DDF | Dihydrofolate reductase | 1.5.1.3 | 0.441 | |
| 1u72 | MTX | Dihydrofolate reductase | 1.5.1.3 | 0.441 | |
| 3a1l | 2CC | Cytochrome P450 | / | 0.441 | |
| 3m08 | RAR | Dihydrofolate reductase | 1.5.1.3 | 0.441 | |
| 4elb | 34R | Dihydrofolate reductase | / | 0.441 | |
| 1rd7 | FOL | Dihydrofolate reductase | 1.5.1.3 | 0.440 | |
| 2ham | C33 | Vitamin D3 receptor | / | 0.440 | |
| 2our | CMP | cAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A | 3.1.4.17 | 0.440 | |
| 3nj0 | PYV | Abscisic acid receptor PYL2 | / | 0.440 | |
| 3qpn | PFK | cAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A | 3.1.4.17 | 0.440 | |
| 3r33 | 6ME | Dihydrofolate reductase | 1.5.1.3 | 0.440 | |
| 3srr | Q20 | Dihydrofolate reductase | 1.5.1.3 | 0.440 | |
| 4g1z | 0VP | Vitamin D3 receptor A | / | 0.440 | |
| 4ib4 | ERM | 5-hydroxytryptamine receptor 2B | / | 0.440 | |
| 4qjc | IXE | Dihydrofolate reductase | 1.5.1.3 | 0.440 |