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 |
|---|---|---|---|
| 2xx2 | 13C | ATP-dependent molecular chaperone HSP82 |
| PDB ID | HET | Uniprot Name | EC Number | Binding Site Similarity |
Align |
|---|---|---|---|---|---|
| 2xx2 | 13C | ATP-dependent molecular chaperone HSP82 | / | 1.000 | |
| 1bgq | RDC | ATP-dependent molecular chaperone HSP82 | / | 0.640 | |
| 1amw | ADP | ATP-dependent molecular chaperone HSP82 | / | 0.634 | |
| 4jql | VJ6 | Heat shock protein HSP 90-alpha | / | 0.632 | |
| 4bqj | XKL | Heat shock protein HSP 90-alpha | / | 0.605 | |
| 2byh | 2D7 | Heat shock protein HSP 90-alpha | / | 0.604 | |
| 2fxs | RDA | ATP-dependent molecular chaperone HSP82 | / | 0.600 | |
| 1am1 | ADP | ATP-dependent molecular chaperone HSP82 | / | 0.599 | |
| 3vha | VHA | Heat shock protein HSP 90-alpha | / | 0.594 | |
| 4xcj | ADP | Heat shock cognate 90 kDa protein | / | 0.584 | |
| 2qg0 | A94 | Heat shock protein HSP 90-alpha | / | 0.583 | |
| 4as9 | 4QS | ATP-dependent molecular chaperone HSP82 | / | 0.577 | |
| 2wer | RDC | ATP-dependent molecular chaperone HSP82 | / | 0.575 | |
| 2iwu | NP5 | ATP-dependent molecular chaperone HSP82 | / | 0.574 | |
| 3t10 | ACP | Heat shock protein HSP 90-alpha | / | 0.574 | |
| 3hhu | 819 | Heat shock protein HSP 90-alpha | / | 0.572 | |
| 3ekr | PY9 | Heat shock protein HSP 90-alpha | / | 0.570 | |
| 4eft | EFT | Heat shock protein HSP 90-alpha | / | 0.568 | |
| 2bz5 | AB4 | Heat shock protein HSP 90-alpha | / | 0.567 | |
| 2exl | GDM | Endoplasmin | / | 0.567 | |
| 3r4n | FU5 | Heat shock protein HSP 90-alpha | / | 0.567 | |
| 2yef | ANP | Heat shock protein HSP 90-alpha | / | 0.565 | |
| 2yeg | XQG | Heat shock protein HSP 90-alpha | / | 0.563 | |
| 3r4o | FU3 | Heat shock protein HSP 90-alpha | / | 0.562 | |
| 2vw5 | BC6 | ATP-dependent molecular chaperone HSP82 | / | 0.561 | |
| 4gqt | ADP | Heat shock protein 90 | / | 0.561 | |
| 2byi | 2DD | Heat shock protein HSP 90-alpha | / | 0.558 | |
| 4ipe | ANP | TNF receptor-associated protein 1 | / | 0.558 | |
| 2xk2 | ADP | Heat shock protein HSP 90-alpha | / | 0.556 | |
| 2bre | KJ2 | ATP-dependent molecular chaperone HSP82 | / | 0.555 | |
| 4xcl | AGS | Heat shock cognate 90 kDa protein | / | 0.555 | |
| 2brc | CT5 | ATP-dependent molecular chaperone HSP82 | / | 0.554 | |
| 1qy8 | RDI | Endoplasmin | / | 0.553 | |
| 4egi | B2J | Heat shock protein HSP 90-alpha | / | 0.552 | |
| 3r4p | FU7 | Heat shock protein HSP 90-alpha | / | 0.549 | |
| 3c11 | GDM | ATP-dependent molecular chaperone HSP82 | / | 0.548 | |
| 1u0z | RDC | Endoplasmin | / | 0.547 | |
| 3rlq | 3RQ | Heat shock protein HSP 90-alpha | / | 0.547 | |
| 2fyp | RDE | Endoplasmin | / | 0.546 | |
| 2gfd | RDA | Endoplasmin | / | 0.546 | |
| 2hch | N5A | Endoplasmin | / | 0.544 | |
| 2hg1 | N5O | Endoplasmin | / | 0.544 | |
| 3t2s | AGS | Heat shock protein HSP 90-alpha | / | 0.544 | |
| 1yc3 | 4BC | Heat shock protein HSP 90-alpha | / | 0.543 | |
| 1yc4 | 43P | Heat shock protein HSP 90-alpha | / | 0.543 | |
| 2xx4 | 13I | ATP-dependent molecular chaperone HSP82 | / | 0.542 | |
| 3k97 | 4CD | Heat shock protein HSP 90-alpha | / | 0.542 | |
| 3t0z | ATP | Heat shock protein HSP 90-alpha | / | 0.542 | |
| 4asg | 814 | ATP-dependent molecular chaperone HSP82 | / | 0.542 | |
| 4ce1 | 7FK | ATP-dependent molecular chaperone HSP82 | / | 0.540 | |
| 2xab | VHD | Heat shock protein HSP 90-alpha | / | 0.539 | |
| 1u2o | NEC | Endoplasmin | / | 0.536 | |
| 1yt0 | ADP | Endoplasmin | / | 0.536 | |
| 4fcr | 0TM | Heat shock protein HSP 90-alpha | / | 0.536 | |
| 3ied | AN2 | HSP90 | / | 0.534 | |
| 2yee | 2EC | Heat shock protein HSP 90-alpha | / | 0.533 | |
| 3qdd | 94M | Heat shock protein HSP 90-alpha | / | 0.532 | |
| 2iws | NP4 | ATP-dependent molecular chaperone HSP82 | / | 0.531 | |
| 2o1u | ANP | Endoplasmin | / | 0.531 | |
| 2bt0 | CT5 | Heat shock protein HSP 90-alpha | / | 0.530 | |
| 2gqp | PA7 | Endoplasmin | / | 0.530 | |
| 4ce2 | BO5 | ATP-dependent molecular chaperone HSP82 | / | 0.525 | |
| 1yc1 | 4BC | Heat shock protein HSP 90-alpha | / | 0.524 | |
| 4xc0 | ACP | Heat shock cognate 90 kDa protein | / | 0.524 | |
| 2xd6 | XD6 | ATP-dependent molecular chaperone HSP82 | / | 0.523 | |
| 3q5l | KX2 | Heat shock protein 83-1 | / | 0.522 | |
| 3t1k | ANP | Heat shock protein HSP 90-alpha | / | 0.522 | |
| 2vcj | 2EQ | Heat shock protein HSP 90-alpha | / | 0.521 | |
| 3hyz | 42C | Heat shock protein HSP 90-alpha | / | 0.521 | |
| 3k98 | 1RC | Heat shock protein HSP 90-alpha | / | 0.521 | |
| 2wep | ADP | ATP-dependent molecular chaperone HSP82 | / | 0.520 | |
| 2esa | GDM | Endoplasmin | / | 0.519 | |
| 1uy7 | PU4 | Heat shock protein HSP 90-alpha | / | 0.518 | |
| 1uye | PU9 | Heat shock protein HSP 90-alpha | / | 0.518 | |
| 3ft8 | MOJ | Heat shock protein HSP 90-alpha | / | 0.518 | |
| 2qfo | A13 | Heat shock protein HSP 90-alpha | / | 0.516 | |
| 4efu | EFU | Heat shock protein HSP 90-alpha | / | 0.515 | |
| 1byq | ADP | Heat shock protein HSP 90-alpha | / | 0.514 | |
| 2bu8 | ADP | [Pyruvate dehydrogenase (acetyl-transferring)] kinase isozyme 2, mitochondrial | 2.7.11.2 | 0.513 | |
| 4bqg | 50Q | Heat shock protein HSP 90-alpha | / | 0.510 | |
| 2iwx | M1S | ATP-dependent molecular chaperone HSP82 | / | 0.509 | |
| 2xcm | ADP | Cytosolic heat shock protein 90 | / | 0.509 | |
| 2yi5 | YI5 | Heat shock protein HSP 90-alpha | / | 0.509 | |
| 1qy5 | NEC | Endoplasmin | / | 0.507 | |
| 1ysz | NEC | Endoplasmin | / | 0.507 | |
| 2qg2 | A91 | Heat shock protein HSP 90-alpha | / | 0.507 | |
| 2xhr | C0P | Heat shock protein HSP 90-alpha | / | 0.506 | |
| 3peh | IBD | Endoplasmin homolog, putative | / | 0.506 | |
| 2zdy | ADP | [Pyruvate dehydrogenase (acetyl-transferring)] kinase isozyme 4, mitochondrial | 2.7.11.2 | 0.505 | |
| 4asf | 62U | ATP-dependent molecular chaperone HSP82 | / | 0.505 | |
| 2vwc | BC2 | ATP-dependent molecular chaperone HSP82 | / | 0.503 | |
| 3rlr | 3RR | Heat shock protein HSP 90-alpha | / | 0.500 | |
| 3k99 | PFT | Heat shock protein HSP 90-alpha | / | 0.499 | |
| 4ivg | ANP | TNF receptor-associated protein 1 | / | 0.498 | |
| 2cgf | P2N | ATP-dependent molecular chaperone HSP82 | / | 0.495 | |
| 2wi5 | ZZ5 | Heat shock protein HSP 90-alpha | / | 0.495 | |
| 1u0y | PA7 | Endoplasmin | / | 0.493 | |
| 3d2r | ADP | [Pyruvate dehydrogenase (acetyl-transferring)] kinase isozyme 4, mitochondrial | 2.7.11.2 | 0.493 | |
| 3crl | ANP | [Pyruvate dehydrogenase (acetyl-transferring)] kinase isozyme 2, mitochondrial | 2.7.11.2 | 0.491 | |
| 2xx5 | 13N | ATP-dependent molecular chaperone HSP82 | / | 0.490 | |
| 3eko | PYU | Heat shock protein HSP 90-alpha | / | 0.490 | |
| 4ce3 | L4V | ATP-dependent molecular chaperone HSP82 | / | 0.489 | |
| 5f5r | ANP | Heat shock protein 75 kDa, mitochondrial | / | 0.487 | |
| 3hz1 | 42C | Heat shock protein HSP 90-alpha | / | 0.486 | |
| 1uyk | PUX | Heat shock protein HSP 90-alpha | / | 0.485 | |
| 3hz5 | Z64 | Heat shock protein HSP 90-alpha | / | 0.485 | |
| 1uy8 | PU5 | Heat shock protein HSP 90-alpha | / | 0.484 | |
| 1i5c | ADP | Chemotaxis protein CheA | 2.7.13.3 | 0.483 | |
| 1y4s | ADP | Chaperone protein HtpG | / | 0.483 | |
| 2wi6 | ZZ6 | Heat shock protein HSP 90-alpha | / | 0.483 | |
| 2yec | XQ0 | Heat shock protein HSP 90-alpha | / | 0.483 | |
| 1uy9 | PU6 | Heat shock protein HSP 90-alpha | / | 0.480 | |
| 2yke | YKE | Heat shock protein HSP 90-alpha | / | 0.479 | |
| 1uyd | PU8 | Heat shock protein HSP 90-alpha | / | 0.478 | |
| 2fwy | H64 | Heat shock protein HSP 90-alpha | / | 0.477 | |
| 2qfo | A51 | Heat shock protein HSP 90-alpha | / | 0.477 | |
| 3h4l | ANP | DNA mismatch repair protein PMS1 | / | 0.476 | |
| 2oap | ANP | Type II secretion system protein (GspE-2) | / | 0.474 | |
| 1uym | PU3 | Heat shock protein HSP 90-beta | / | 0.473 | |
| 2yei | XQI | Heat shock protein HSP 90-alpha | / | 0.469 | |
| 2o1v | ADP | Endoplasmin | / | 0.467 | |
| 1uyi | PUZ | Heat shock protein HSP 90-alpha | / | 0.466 | |
| 4awp | 99A | Heat shock protein HSP 90-alpha | / | 0.466 | |
| 1i5b | ANP | Chemotaxis protein CheA | 2.7.13.3 | 0.464 | |
| 3inw | JZB | Heat shock protein HSP 90-alpha | / | 0.464 | |
| 3b28 | B2X | Heat shock protein HSP 90-alpha | / | 0.463 | |
| 3omu | IBD | Heat shock protein 83 | / | 0.463 | |
| 1i59 | ANP | Chemotaxis protein CheA | 2.7.13.3 | 0.462 | |
| 3eof | FMN | Putative oxidase | / | 0.461 | |
| 3inx | JZC | Heat shock protein HSP 90-alpha | / | 0.461 | |
| 2e0a | ANP | [Pyruvate dehydrogenase (acetyl-transferring)] kinase isozyme 4, mitochondrial | 2.7.11.2 | 0.459 | |
| 2q8i | RDC | [Pyruvate dehydrogenase (acetyl-transferring)] kinase isozyme 3, mitochondrial | 2.7.11.2 | 0.459 | |
| 3o0i | P54 | Heat shock protein HSP 90-alpha | / | 0.459 | |
| 1uyc | PU7 | Heat shock protein HSP 90-alpha | / | 0.458 | |
| 2yki | YKI | Heat shock protein HSP 90-alpha | / | 0.458 | |
| 4nh8 | 2LC | Heat shock protein HSP 90-alpha | / | 0.457 | |
| 1i58 | ADP | Chemotaxis protein CheA | 2.7.13.3 | 0.456 | |
| 2fwz | H71 | Heat shock protein HSP 90-alpha | / | 0.456 | |
| 2zkj | ADP | [Pyruvate dehydrogenase (acetyl-transferring)] kinase isozyme 4, mitochondrial | 2.7.11.2 | 0.456 | |
| 5bsf | NAD | Pyrroline-5-carboxylate reductase | / | 0.456 | |
| 1kzj | CB3 | Thymidylate synthase | / | 0.455 | |
| 2vci | 2GJ | Heat shock protein HSP 90-alpha | / | 0.455 | |
| 1uyf | PU1 | Heat shock protein HSP 90-alpha | / | 0.454 | |
| 3pej | BC2 | Endoplasmin homolog, putative | / | 0.454 | |
| 3lqf | NAD | Galactitol dehydrogenase | / | 0.453 | |
| 1qbg | FAD | NAD(P)H dehydrogenase [quinone] 1 | 1.6.5.2 | 0.452 | |
| 2ykb | YKB | Heat shock protein HSP 90-alpha | / | 0.452 | |
| 2jj2 | ANP | ATP synthase subunit beta, mitochondrial | 3.6.3.14 | 0.451 | |
| 3hek | BD0 | Heat shock protein HSP 90-alpha | / | 0.451 | |
| 1i5a | ACP | Chemotaxis protein CheA | 2.7.13.3 | 0.450 | |
| 3o6o | 94M | Heat shock protein 83 | / | 0.450 | |
| 4pvd | NDP | NADPH-dependent methylglyoxal reductase GRE2 | / | 0.450 | |
| 4nky | 3QZ | Steroid 17-alpha-hydroxylase/17,20 lyase | / | 0.449 | |
| 1nhh | ANP | DNA mismatch repair protein MutL | / | 0.448 | |
| 2yi6 | 6QM | Heat shock protein HSP 90-alpha | / | 0.448 | |
| 3t3r | 9PL | Cytochrome P450 2A6 | 1.14.13 | 0.448 | |
| 3wha | WHA | Heat shock protein HSP 90-alpha | / | 0.448 | |
| 2yxu | ATP | Pyridoxal kinase | 2.7.1.35 | 0.447 | |
| 2zdx | P4A | [Pyruvate dehydrogenase (acetyl-transferring)] kinase isozyme 4, mitochondrial | 2.7.11.2 | 0.447 | |
| 3mnr | SD1 | Heat shock protein HSP 90-alpha | / | 0.447 | |
| 3s1d | ZIR | Cytokinin dehydrogenase 1 | 1.5.99.12 | 0.447 | |
| 4z64 | ILE_THR_GLN_TYS_TYS | Phytosulfokine receptor 1 | 2.7.11.1 | 0.447 | |
| 1h63 | FMN | Pentaerythritol tetranitrate reductase | / | 0.446 | |
| 1tqf | 32P | Beta-secretase 1 | 3.4.23.46 | 0.446 | |
| 2cch | ATP | Cyclin-dependent kinase 2 | 2.7.11.22 | 0.446 | |
| 2cf6 | NAP | Cinnamyl alcohol dehydrogenase 5 | 1.1.1.195 | 0.446 | |
| 1x8v | ESL | Lanosterol 14-alpha demethylase | 1.14.13.70 | 0.445 | |
| 2hkj | RDC | Type 2 DNA topoisomerase 6 subunit B | / | 0.445 | |
| 2qo9 | ANP | Ephrin type-A receptor 3 | 2.7.10.1 | 0.445 | |
| 3inm | NDP | Isocitrate dehydrogenase [NADP] cytoplasmic | 1.1.1.42 | 0.445 | |
| 1p44 | NAD | Enoyl-[acyl-carrier-protein] reductase [NADH] | 1.3.1.9 | 0.444 | |
| 4fcq | 2N6 | Heat shock protein HSP 90-alpha | / | 0.444 | |
| 1ohh | ANP | ATP synthase subunit alpha, mitochondrial | / | 0.443 | |
| 1ohh | ANP | ATP synthase subunit beta, mitochondrial | 3.6.3.14 | 0.443 | |
| 1uyh | PU0 | Heat shock protein HSP 90-alpha | / | 0.443 | |
| 2dvl | FAD | Acyl-CoA dehydrogenase | / | 0.443 | |
| 2ykc | YKC | Heat shock protein HSP 90-alpha | / | 0.443 | |
| 3zux | TCH | Transporter | / | 0.443 | |
| 3kp4 | MII | Transcriptional regulator TcaR | / | 0.442 | |
| 1nzf | UPG | DNA beta-glucosyltransferase | / | 0.441 | |
| 1nvt | NAP | Shikimate dehydrogenase (NADP(+)) | / | 0.440 | |
| 1nzd | UPG | DNA beta-glucosyltransferase | / | 0.440 | |
| 1p3d | UMA | UDP-N-acetylmuramate--L-alanine ligase | 6.3.2.8 | 0.440 | |
| 3pt6 | SAH | DNA (cytosine-5)-methyltransferase 1 | 2.1.1.37 | 0.440 | |
| 4bb3 | KKA | Isopenicillin N synthase | 1.21.3.1 | 0.440 | |
| 4l6g | CNL | 1,8-cineole 2-endo-monooxygenase | 1.14.13.156 | 0.440 | |
| 5fm7 | ADP | RuvB-like helicase | / | 0.440 |