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 |
|---|---|---|---|
| 1ibr | GNP | GTP-binding nuclear protein Ran |
| PDB ID | HET | Uniprot Name | EC Number | Binding Site Similarity |
Align |
|---|---|---|---|---|---|
| 1ibr | GNP | GTP-binding nuclear protein Ran | / | 1.000 | |
| 5dha | GNP | GTP-binding nuclear protein Ran | / | 0.628 | |
| 5jlj | GNP | GTP-binding nuclear protein Ran | / | 0.597 | |
| 2zet | GTP | Ras-related protein Rab-27B | / | 0.593 | |
| 1xts | GTP | GTP-binding protein Rheb | / | 0.591 | |
| 3rab | GNP | Ras-related protein Rab-3A | / | 0.583 | |
| 1zbd | GTP | Ras-related protein Rab-3A | / | 0.580 | |
| 3w3z | GTP | GTP-binding nuclear protein Ran | / | 0.577 | |
| 1k5d | GNP | GTP-binding nuclear protein Ran | / | 0.574 | |
| 3nbz | GTP | GTP-binding nuclear protein Ran | / | 0.569 | |
| 3oiu | GNP | GTPase HRas | / | 0.565 | |
| 1yzq | GNP | Ras-related protein Rab-6A | / | 0.562 | |
| 4dlt | GNP | GTPase HRas | / | 0.561 | |
| 3a6p | GTP | GTP-binding nuclear protein Ran | / | 0.560 | |
| 4nyi | GNP | GTPase HRas | / | 0.559 | |
| 4nyj | GNP | GTPase HRas | / | 0.559 | |
| 3e5h | GNP | Ras-related protein Rab-28 | / | 0.556 | |
| 2bku | GTP | GTP-binding nuclear protein Ran | / | 0.554 | |
| 4qxa | GTP | Ras-related protein Rab-9A | / | 0.554 | |
| 1xtr | GNP | GTP-binding protein Rheb | / | 0.552 | |
| 2gil | GTP | Ras-related protein Rab-6A | / | 0.552 | |
| 1vg8 | GNP | Ras-related protein Rab-7a | / | 0.549 | |
| 3ea5 | GDP | GTP-binding nuclear protein Ran | / | 0.548 | |
| 5dif | GNP | GTP-binding nuclear protein Ran | / | 0.548 | |
| 4o25 | GTP | GTP-binding protein Rheb | / | 0.546 | |
| 3bbp | GTP | Ras-related protein Rab-6A | / | 0.545 | |
| 3oes | GNP | GTPase RhebL1 | / | 0.543 | |
| 3v4f | GNP | GTPase HRas | / | 0.542 | |
| 3ddc | GNP | GTPase HRas | / | 0.537 | |
| 2x19 | GTP | GTP-binding nuclear protein GSP1/CNR1 | / | 0.536 | |
| 4k81 | GTP | GTPase HRas | / | 0.536 | |
| 4rkf | GNP | Ras-related protein Rab-3 | / | 0.536 | |
| 1t91 | GTP | Ras-related protein Rab-7a | / | 0.526 | |
| 3rs5 | GNP | GTPase HRas | / | 0.526 | |
| 4ol0 | GTP | GTP-binding nuclear protein Ran | / | 0.525 | |
| 2fe4 | GDP | Ras-related protein Rab-6B | / | 0.524 | |
| 3law | GNP | Ras-related protein Rab-7a | / | 0.524 | |
| 4hdo | GNP | Ras-related protein Rap-1b | / | 0.522 | |
| 3bc1 | GNP | Ras-related protein Rab-27A | / | 0.519 | |
| 3kz1 | GSP | Transforming protein RhoA | / | 0.519 | |
| 5b2z | GNP | GTPase HRas | / | 0.519 | |
| 1g17 | GNP | Ras-related protein SEC4 | / | 0.517 | |
| 1yhn | GTP | Ras-related protein Rab-7a | / | 0.517 | |
| 2fju | GSP | Ras-related C3 botulinum toxin substrate 1 | / | 0.517 | |
| 3l8y | GNP | GTPase HRas | / | 0.517 | |
| 3a58 | GNP | GTP-binding protein RHO1 | / | 0.515 | |
| 2rge | GNP | GTPase HRas | / | 0.514 | |
| 3lbn | GNP | GTPase HRas | / | 0.514 | |
| 4dso | GSP | GTPase KRas | / | 0.514 | |
| 2rgb | GNP | GTPase HRas | / | 0.510 | |
| 3oiw | GNP | GTPase HRas | / | 0.510 | |
| 3oiv | GNP | GTPase HRas | / | 0.509 | |
| 4lhw | GNP | Ras-related protein Rab-8A | / | 0.508 | |
| 2ffq | GSP | Ras-related protein Rab-6B | / | 0.507 | |
| 3kud | GDP | GTPase HRas | / | 0.505 | |
| 3tso | GNP | Ras-related protein Rab-25 | / | 0.505 | |
| 1a2b | GSP | Transforming protein RhoA | / | 0.504 | |
| 4cym | GCP | Ras-related protein Rab-32 | / | 0.504 | |
| 1e96 | GTP | Ras-related C3 botulinum toxin substrate 1 | / | 0.503 | |
| 3kuc | GDP | Ras-related protein Rap-1A | / | 0.503 | |
| 3lbh | GNP | GTPase HRas | / | 0.502 | |
| 2fg5 | GNP | Ras-related protein Rab-31 | / | 0.501 | |
| 4uj5 | GNP | Ras-related protein Rab-11A | / | 0.501 | |
| 1zd9 | GDP | ADP-ribosylation factor-like protein 8A | / | 0.500 | |
| 3kko | GNP | Ras-related protein M-Ras | / | 0.500 | |
| 3rs7 | GNP | GTPase HRas | / | 0.500 | |
| 1zc4 | GNP | Ras-related protein Ral-A | / | 0.499 | |
| 3rs0 | GNP | GTPase HRas | / | 0.499 | |
| 4dlw | GNP | GTPase HRas | / | 0.499 | |
| 1kmq | GNP | Transforming protein RhoA | / | 0.498 | |
| 3x1z | GNP | Ras-related protein Rap-1b | / | 0.496 | |
| 4o2r | GDP | GTP-binding protein Rheb | / | 0.495 | |
| 1zc3 | GNP | Ras-related protein Ral-A | / | 0.494 | |
| 4mit | GTP | Rho-related protein racC | / | 0.494 | |
| 3qbt | GNP | Ras-related protein Rab-8A | / | 0.493 | |
| 4uj3 | GNP | Ras-related protein Rab-11A | / | 0.492 | |
| 2gcp | GSP | Rho-related GTP-binding protein RhoC | / | 0.491 | |
| 3rs4 | GNP | GTPase HRas | / | 0.491 | |
| 1s1c | GNP | Transforming protein RhoA | / | 0.490 | |
| 3pit | GNP | Ras-related protein M-Ras | / | 0.490 | |
| 2cls | GTP | Rho-related GTP-binding protein Rho6 | / | 0.489 | |
| 4o2l | GTP | GTP-binding protein Rheb | / | 0.489 | |
| 5c46 | GSP | Ras-related protein Rab-11A | / | 0.489 | |
| 1oix | GDP | Ras-related protein Rab-11A | / | 0.488 | |
| 3sbd | GNP | Ras-related C3 botulinum toxin substrate 1 | / | 0.487 | |
| 3wyf | GTP | GTP-binding nuclear protein | / | 0.487 | |
| 4dsn | GCP | GTPase KRas | / | 0.486 | |
| 1cs4 | GSP | Guanine nucleotide-binding protein G(s) subunit alpha isoforms short | / | 0.485 | |
| 4g0n | GNP | GTPase HRas | / | 0.485 | |
| 5hpy | GDP | Transforming protein RhoA | / | 0.485 | |
| 2c5l | GTP | GTPase HRas | / | 0.484 | |
| 3i3s | GNP | GTPase HRas | / | 0.484 | |
| 2rgc | GNP | GTPase HRas | / | 0.482 | |
| 4dlz | GNP | GTPase HRas | / | 0.481 | |
| 3eg5 | GNP | Cell division control protein 42 homolog | / | 0.480 | |
| 2ov2 | GCP | Ras-related C3 botulinum toxin substrate 3 | / | 0.478 | |
| 3rsl | GNP | GTPase HRas | / | 0.477 | |
| 1cxz | GSP | Transforming protein RhoA | / | 0.476 | |
| 4dlx | GNP | GTPase HRas | / | 0.476 | |
| 3tkl | GTP | Ras-related protein Rab-1A | / | 0.475 | |
| 1u0h | GSP | Guanine nucleotide-binding protein G(s) subunit alpha isoforms short | / | 0.474 | |
| 3mjh | GTP | Ras-related protein Rab-5A | / | 0.474 | |
| 3th5 | GNP | Ras-related C3 botulinum toxin substrate 1 | / | 0.474 | |
| 1lfd | GNP | GTPase HRas | / | 0.473 | |
| 1mh1 | GNP | Ras-related C3 botulinum toxin substrate 1 | / | 0.473 | |
| 4pan | GDP | Guanine nucleotide-binding protein G(i) subunit alpha-1 | / | 0.472 | |
| 3lbi | GNP | GTPase HRas | / | 0.471 | |
| 2gvd | GSP | Guanine nucleotide-binding protein G(s) subunit alpha isoforms short | / | 0.470 | |
| 4kvg | GTP | Ras-related protein Rap-1A | / | 0.470 | |
| 2w2x | GSP | Ras-related C3 botulinum toxin substrate 2 | / | 0.469 | |
| 4dls | GNP | GTPase HRas | / | 0.469 | |
| 2qme | GCP | Ras-related C3 botulinum toxin substrate 3 | / | 0.468 | |
| 1g16 | GDP | Ras-related protein SEC4 | / | 0.467 | |
| 1ow3 | GDP | Transforming protein RhoA | / | 0.467 | |
| 4js0 | GNP | Cell division control protein 42 homolog | / | 0.466 | |
| 2q3f | GNP | Ras-related GTP-binding protein D | / | 0.464 | |
| 3k8y | GNP | GTPase HRas | / | 0.464 | |
| 3qe0 | GDP | Guanine nucleotide-binding protein G(i) subunit alpha-1 | / | 0.464 | |
| 3sbe | GNP | Ras-related C3 botulinum toxin substrate 1 | / | 0.464 | |
| 4dsu | GDP | GTPase KRas | / | 0.464 | |
| 4xvr | GNP | GTPase HRas | / | 0.460 | |
| 1z2c | GNP | Rho-related GTP-binding protein RhoC | / | 0.459 | |
| 4xoi | GTP | Transforming protein RhoA | / | 0.459 | |
| 2msd | GNP | MHC class I alpha chain | / | 0.458 | |
| 3c14 | GSP | Guanine nucleotide-binding protein G(s) subunit alpha isoforms short | / | 0.458 | |
| 3wyg | GTP | GTP-binding nuclear protein GSP1/CNR1 | / | 0.457 | |
| 4dlv | GNP | GTPase HRas | / | 0.457 | |
| 4dxa | GSP | Ras-related protein Rap-1b | / | 0.457 | |
| 4dzz | ADP | Plasmid partitioning protein ParF | / | 0.456 | |
| 1d5c | GDP | GTPase (Rab6) | / | 0.455 | |
| 4l9s | GDP | GTPase HRas | / | 0.455 | |
| 1m2o | GNP | Small COPII coat GTPase SAR1 | 3.6.5 | 0.454 | |
| 4hdq | GNP | Ras-related protein Rap-1b | / | 0.454 | |
| 1n6l | GTP | Ras-related protein Rab-5A | / | 0.452 | |
| 1uad | GNP | Ras-related protein Ral-A | / | 0.452 | |
| 2xtz | GSP | Guanine nucleotide-binding protein alpha-1 subunit | / | 0.452 | |
| 3c15 | GSP | Guanine nucleotide-binding protein G(s) subunit alpha isoforms short | / | 0.452 | |
| 3c16 | GSP | Guanine nucleotide-binding protein G(s) subunit alpha isoforms short | / | 0.452 | |
| 1q12 | ATP | Maltose/maltodextrin import ATP-binding protein MalK | / | 0.451 | |
| 3tnf | GNP | Ras-related protein Rab-8A | / | 0.450 | |
| 4luc | GDP | GTPase KRas | / | 0.450 | |
| 4e03 | ADP | Plasmid partitioning protein ParF | / | 0.449 | |
| 4jnk | ZHK | L-lactate dehydrogenase A chain | 1.1.1.27 | 0.449 | |
| 4oi2 | ADP | Protein clpf-1 | / | 0.449 | |
| 1z2a | GDP | Ras-related protein Rab-23 | / | 0.447 | |
| 4qbf | AP5 | Adenylate kinase | / | 0.445 | |
| 1y3a | GDP | Guanine nucleotide-binding protein G(i) subunit alpha-1 | / | 0.443 | |
| 1z0a | GDP | Ras-related protein Rab-2A | / | 0.443 | |
| 3v2u | ATP | Protein GAL3 | / | 0.441 | |
| 4obe | GDP | GTPase KRas | / | 0.441 | |
| 4lpk | GDP | GTPase KRas | / | 0.440 |