sc-PDB
An Annotated Database of Druggable Binding Sites from the Protein DataBank
An Annotated Database of Druggable Binding Sites from the Protein DataBank
Cavities 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
| PDB ID | HET | Uniprot Name | EC Number |
|---|---|---|---|
| 3v1y | NAD | Glyceraldehyde-3-phosphate dehydrogenase 1, cytosolic | 1.2.1.12 |
| PDB ID | HET | Uniprot Name | EC Number | Cavity Similarity |
Align |
|---|---|---|---|---|---|
| 3v1y | NAD | Glyceraldehyde-3-phosphate dehydrogenase 1, cytosolic | 1.2.1.12 | 1.000 | |
| 1dc6 | NAD | Glyceraldehyde-3-phosphate dehydrogenase A | / | 0.670 | |
| 4lsm | NAD | Glyceraldehyde-3-phosphate dehydrogenase | / | 0.638 | |
| 1u8f | NAD | Glyceraldehyde-3-phosphate dehydrogenase | 1.2.1.12 | 0.636 | |
| 4z0h | NAD | Glyceraldehyde-3-phosphate dehydrogenase GAPC1, cytosolic | 1.2.1.12 | 0.635 | |
| 3e5r | NAD | Glyceraldehyde-3-phosphate dehydrogenase 1, cytosolic | 1.2.1.12 | 0.620 | |
| 4p8r | NAD | Glyceraldehyde-3-phosphate dehydrogenase | / | 0.618 | |
| 4o59 | NAD | Glyceraldehyde-3-phosphate dehydrogenase | 1.2.1.12 | 0.601 | |
| 1ml3 | NAD | Glyceraldehyde-3-phosphate dehydrogenase, glycosomal | 1.2.1.12 | 0.600 | |
| 4k9d | NAD | Glyceraldehyde-3-phosphate dehydrogenase | 1.2.1.12 | 0.599 | |
| 3gnq | NAD | Glyceraldehyde-3-phosphate dehydrogenase | / | 0.596 | |
| 1gad | NAD | Glyceraldehyde-3-phosphate dehydrogenase A | / | 0.595 | |
| 4o63 | NAD | Glyceraldehyde-3-phosphate dehydrogenase | 1.2.1.12 | 0.595 | |
| 1ihx | SND | Glyceraldehyde-3-phosphate dehydrogenase | 1.2.1.12 | 0.592 | |
| 3pym | NAD | Glyceraldehyde-3-phosphate dehydrogenase 3 | 1.2.1.12 | 0.592 | |
| 4dbv | NDP | Glyceraldehyde-3-phosphate dehydrogenase | / | 0.591 | |
| 3ids | NAD | Glyceraldehyde-3-phosphate dehydrogenase, glycosomal | 1.2.1.12 | 0.590 | |
| 1szj | NAD | Glyceraldehyde-3-phosphate dehydrogenase | 1.2.1.12 | 0.589 | |
| 1dbv | NAD | Glyceraldehyde-3-phosphate dehydrogenase | / | 0.587 | |
| 1gd1 | NAD | Glyceraldehyde-3-phosphate dehydrogenase | / | 0.587 | |
| 1jn0 | NDP | Glyceraldehyde-3-phosphate dehydrogenase A, chloroplastic | 1.2.1.13 | 0.587 | |
| 2dbv | NDP | Glyceraldehyde-3-phosphate dehydrogenase | / | 0.585 | |
| 1vc2 | NAD | Glyceraldehyde-3-phosphate dehydrogenase | / | 0.582 | |
| 2ep7 | NAD | Glyceraldehyde-3-phosphate dehydrogenase | / | 0.582 | |
| 3cps | NAD | Glyceraldehyde-3-phosphate dehydrogenase | / | 0.582 | |
| 3ksd | NAD | Glyceraldehyde-3-phosphate dehydrogenase 1 | / | 0.579 | |
| 5c7o | NAD | Glyceraldehyde-3-phosphate dehydrogenase, testis-specific | 1.2.1.12 | 0.578 | |
| 1qxs | NAD | Glyceraldehyde-3-phosphate dehydrogenase, glycosomal | 1.2.1.12 | 0.577 | |
| 1rm4 | NDP | Glyceraldehyde-3-phosphate dehydrogenase A, chloroplastic | 1.2.1.13 | 0.577 | |
| 3zcx | NAD | Glyceraldehyde-3-phosphate dehydrogenase | / | 0.577 | |
| 4boy | NAD | Glyceraldehyde-3-phosphate dehydrogenase | / | 0.575 | |
| 1npt | NAD | Glyceraldehyde-3-phosphate dehydrogenase | / | 0.574 | |
| 1vsv | NAD | Glyceraldehyde-3-phosphate dehydrogenase | / | 0.574 | |
| 3hja | NAD | Glyceraldehyde-3-phosphate dehydrogenase | / | 0.569 | |
| 2b4r | NAD | Glyceraldehyde-3-phosphate dehydrogenase | / | 0.567 | |
| 2vyn | NAD | Glyceraldehyde-3-phosphate dehydrogenase A | / | 0.566 | |
| 1rm5 | NDP | Glyceraldehyde-3-phosphate dehydrogenase A, chloroplastic | 1.2.1.13 | 0.565 | |
| 3cmc | NAD | Glyceraldehyde-3-phosphate dehydrogenase | / | 0.565 | |
| 3dmt | NAD | Glyceraldehyde-3-phosphate dehydrogenase, glycosomal | 1.2.1.12 | 0.563 | |
| 3k2b | NAD | Glyceraldehyde-3-phosphate dehydrogenase GAPA1, chloroplastic | 1.2.1.13 | 0.562 | |
| 1ywg | NAD | Glyceraldehyde-3-phosphate dehydrogenase | / | 0.560 | |
| 3doc | NAD | Glyceraldehyde-3-phosphate dehydrogenase | / | 0.559 | |
| 3dbv | NAD | Glyceraldehyde-3-phosphate dehydrogenase | / | 0.558 | |
| 1ihy | APR | Glyceraldehyde-3-phosphate dehydrogenase | 1.2.1.12 | 0.557 | |
| 1j0x | NAD | Glyceraldehyde-3-phosphate dehydrogenase | 1.2.1.12 | 0.554 | |
| 1rm3 | NDP | Glyceraldehyde-3-phosphate dehydrogenase A, chloroplastic | 1.2.1.13 | 0.552 | |
| 1znq | NAD | Glyceraldehyde-3-phosphate dehydrogenase | 1.2.1.12 | 0.552 | |
| 3l0d | NAD | Glyceraldehyde-3-phosphate dehydrogenase | / | 0.546 | |
| 2vyv | NAD | Glyceraldehyde-3-phosphate dehydrogenase A | / | 0.542 | |
| 3lvf | NAD | Glyceraldehyde-3-phosphate dehydrogenase 1 | / | 0.539 | |
| 1nqa | NAD | Glyceraldehyde-3-phosphate dehydrogenase | / | 0.538 | |
| 2pkr | NDP | Glyceraldehyde-3-phosphate dehydrogenase A, chloroplastic | 1.2.1.13 | 0.527 | |
| 1nbo | NAD | Glyceraldehyde-3-phosphate dehydrogenase A, chloroplastic | 1.2.1.13 | 0.525 | |
| 3l4s | NAD | Glyceraldehyde-3-phosphate dehydrogenase 1 | / | 0.517 | |
| 3cif | NAD | Glyceraldehyde-3-phosphate dehydrogenase | / | 0.504 | |
| 1hdg | NAD | Glyceraldehyde-3-phosphate dehydrogenase | / | 0.501 | |
| 1gae | NAD | Glyceraldehyde-3-phosphate dehydrogenase A | / | 0.475 | |
| 4ewn | 0VR | Imidazole glycerol phosphate synthase subunit HisF | 4.1.3 | 0.460 | |
| 2d2i | NAP | Glyceraldehyde-3-phosphate dehydrogenase | / | 0.459 | |
| 1dss | NAD | Glyceraldehyde-3-phosphate dehydrogenase | 1.2.1.12 | 0.454 | |
| 3wyc | NAP | Meso-diaminopimelate D-dehydrogenase | 1.4.1.16 | 0.448 | |
| 1nqo | NAD | Glyceraldehyde-3-phosphate dehydrogenase | / | 0.445 | |
| 4b4o | NDP | Epimerase family protein SDR39U1 | / | 0.443 | |
| 2b4t | AES | Glyceraldehyde-3-phosphate dehydrogenase | / | 0.442 | |
| 5a4k | FAD | NAD(P)H dehydrogenase [quinone] 1 | 1.6.5.2 | 0.440 |