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 |
|---|---|---|---|
| 3bbp | GTP | Ras-related protein Rab-6A |
| PDB ID | HET | Uniprot Name | EC Number | Binding Site Similarity |
Align |
|---|---|---|---|---|---|
| 3bbp | GTP | Ras-related protein Rab-6A | / | 1.000 | |
| 1yzq | GNP | Ras-related protein Rab-6A | / | 0.632 | |
| 2gil | GTP | Ras-related protein Rab-6A | / | 0.628 | |
| 1yhn | GTP | Ras-related protein Rab-7a | / | 0.605 | |
| 3e5h | GNP | Ras-related protein Rab-28 | / | 0.596 | |
| 1t91 | GTP | Ras-related protein Rab-7a | / | 0.582 | |
| 3oes | GNP | GTPase RhebL1 | / | 0.579 | |
| 1vg8 | GNP | Ras-related protein Rab-7a | / | 0.575 | |
| 2ffq | GSP | Ras-related protein Rab-6B | / | 0.572 | |
| 3a6p | GTP | GTP-binding nuclear protein Ran | / | 0.567 | |
| 1zbd | GTP | Ras-related protein Rab-3A | / | 0.565 | |
| 4qxa | GTP | Ras-related protein Rab-9A | / | 0.560 | |
| 2fe4 | GDP | Ras-related protein Rab-6B | / | 0.559 | |
| 2x19 | GTP | GTP-binding nuclear protein GSP1/CNR1 | / | 0.547 | |
| 3lbn | GNP | GTPase HRas | / | 0.546 | |
| 1xts | GTP | GTP-binding protein Rheb | / | 0.539 | |
| 3nbz | GTP | GTP-binding nuclear protein Ran | / | 0.531 | |
| 5dha | GNP | GTP-binding nuclear protein Ran | / | 0.529 | |
| 3w3z | GTP | GTP-binding nuclear protein Ran | / | 0.528 | |
| 4cym | GCP | Ras-related protein Rab-32 | / | 0.527 | |
| 3ea5 | GDP | GTP-binding nuclear protein Ran | / | 0.526 | |
| 3law | GNP | Ras-related protein Rab-7a | / | 0.526 | |
| 4o25 | GTP | GTP-binding protein Rheb | / | 0.526 | |
| 3tnf | GNP | Ras-related protein Rab-8A | / | 0.519 | |
| 4lhw | GNP | Ras-related protein Rab-8A | / | 0.519 | |
| 3rab | GNP | Ras-related protein Rab-3A | / | 0.517 | |
| 1g17 | GNP | Ras-related protein SEC4 | / | 0.509 | |
| 1xtr | GNP | GTP-binding protein Rheb | / | 0.507 | |
| 4kvg | GTP | Ras-related protein Rap-1A | / | 0.505 | |
| 4ol0 | GTP | GTP-binding nuclear protein Ran | / | 0.504 | |
| 3a58 | GNP | GTP-binding protein RHO1 | / | 0.503 | |
| 3bc1 | GNP | Ras-related protein Rab-27A | / | 0.501 | |
| 1zc3 | GNP | Ras-related protein Ral-A | / | 0.499 | |
| 3ddc | GNP | GTPase HRas | / | 0.499 | |
| 1cxz | GSP | Transforming protein RhoA | / | 0.498 | |
| 4k81 | GTP | GTPase HRas | / | 0.498 | |
| 4nyi | GNP | GTPase HRas | / | 0.498 | |
| 1oix | GDP | Ras-related protein Rab-11A | / | 0.497 | |
| 2bku | GTP | GTP-binding nuclear protein Ran | / | 0.497 | |
| 3tso | GNP | Ras-related protein Rab-25 | / | 0.496 | |
| 3v4f | GNP | GTPase HRas | / | 0.496 | |
| 2rge | GNP | GTPase HRas | / | 0.495 | |
| 3oiv | GNP | GTPase HRas | / | 0.494 | |
| 4xoi | GTP | Transforming protein RhoA | / | 0.493 | |
| 5jlj | GNP | GTP-binding nuclear protein Ran | / | 0.493 | |
| 1kmq | GNP | Transforming protein RhoA | / | 0.492 | |
| 2c5l | GTP | GTPase HRas | / | 0.492 | |
| 2w2x | GSP | Ras-related C3 botulinum toxin substrate 2 | / | 0.491 | |
| 4dlt | GNP | GTPase HRas | / | 0.489 | |
| 3tkl | GTP | Ras-related protein Rab-1A | / | 0.488 | |
| 3oiu | GNP | GTPase HRas | / | 0.486 | |
| 4hdo | GNP | Ras-related protein Rap-1b | / | 0.486 | |
| 4nyj | GNP | GTPase HRas | / | 0.484 | |
| 1e96 | GTP | Ras-related C3 botulinum toxin substrate 1 | / | 0.482 | |
| 4rkf | GNP | Ras-related protein Rab-3 | / | 0.482 | |
| 2zet | GTP | Ras-related protein Rab-27B | / | 0.481 | |
| 3rs5 | GNP | GTPase HRas | / | 0.481 | |
| 3x1z | GNP | Ras-related protein Rap-1b | / | 0.479 | |
| 1ibr | GNP | GTP-binding nuclear protein Ran | / | 0.477 | |
| 1zc4 | GNP | Ras-related protein Ral-A | / | 0.474 | |
| 4mit | GTP | Rho-related protein racC | / | 0.474 | |
| 2gcp | GSP | Rho-related GTP-binding protein RhoC | / | 0.473 | |
| 3kuc | GDP | Ras-related protein Rap-1A | / | 0.472 | |
| 3sbd | GNP | Ras-related C3 botulinum toxin substrate 1 | / | 0.470 | |
| 3rs7 | GNP | GTPase HRas | / | 0.469 | |
| 2rgc | GNP | GTPase HRas | / | 0.468 | |
| 3l8y | GNP | GTPase HRas | / | 0.468 | |
| 4js0 | GNP | Cell division control protein 42 homolog | / | 0.468 | |
| 5b2z | GNP | GTPase HRas | / | 0.466 | |
| 5c46 | GSP | Ras-related protein Rab-11A | / | 0.466 | |
| 4dlw | GNP | GTPase HRas | / | 0.465 | |
| 1k5d | GNP | GTP-binding nuclear protein Ran | / | 0.464 | |
| 3kz1 | GSP | Transforming protein RhoA | / | 0.464 | |
| 3pit | GNP | Ras-related protein M-Ras | / | 0.463 | |
| 3eg5 | GNP | Cell division control protein 42 homolog | / | 0.460 | |
| 3i3s | GNP | GTPase HRas | / | 0.460 | |
| 5dif | GNP | GTP-binding nuclear protein Ran | / | 0.460 | |
| 3kud | GDP | GTPase HRas | / | 0.458 | |
| 3rs0 | GNP | GTPase HRas | / | 0.457 | |
| 3k8y | GNP | GTPase HRas | / | 0.456 | |
| 4dsn | GCP | GTPase KRas | / | 0.456 | |
| 4uj5 | GNP | Ras-related protein Rab-11A | / | 0.456 | |
| 1m7b | GTP | Rho-related GTP-binding protein RhoE | / | 0.455 | |
| 3kko | GNP | Ras-related protein M-Ras | / | 0.455 | |
| 5hpy | GDP | Transforming protein RhoA | / | 0.455 | |
| 1zd9 | GDP | ADP-ribosylation factor-like protein 8A | / | 0.453 | |
| 2ov2 | GCP | Ras-related C3 botulinum toxin substrate 3 | / | 0.453 | |
| 1a2b | GSP | Transforming protein RhoA | / | 0.451 | |
| 4dso | GSP | GTPase KRas | / | 0.451 | |
| 2msd | GNP | MHC class I alpha chain | / | 0.449 | |
| 1g16 | GDP | Ras-related protein SEC4 | / | 0.448 | |
| 3sbe | GNP | Ras-related C3 botulinum toxin substrate 1 | / | 0.447 | |
| 4g0n | GNP | GTPase HRas | / | 0.446 | |
| 4uj3 | GNP | Ras-related protein Rab-11A | / | 0.446 | |
| 1s1c | GNP | Transforming protein RhoA | / | 0.445 | |
| 1i5c | ADP | Chemotaxis protein CheA | 2.7.13.3 | 0.443 | |
| 2cls | GTP | Rho-related GTP-binding protein Rho6 | / | 0.442 | |
| 4gzm | GSP | Ras-related C3 botulinum toxin substrate 1 | / | 0.442 | |
| 2fju | GSP | Ras-related C3 botulinum toxin substrate 1 | / | 0.441 | |
| 4xvr | GNP | GTPase HRas | / | 0.440 |