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 |
|---|---|---|---|
| 3t1k | ANP | Heat shock protein HSP 90-alpha |
| PDB ID | HET | Uniprot Name | EC Number | Binding Site Similarity |
Align |
|---|---|---|---|---|---|
| 3t1k | ANP | Heat shock protein HSP 90-alpha | / | 1.000 | |
| 3t2s | AGS | Heat shock protein HSP 90-alpha | / | 0.727 | |
| 2yef | ANP | Heat shock protein HSP 90-alpha | / | 0.637 | |
| 1byq | ADP | Heat shock protein HSP 90-alpha | / | 0.631 | |
| 3t10 | ACP | Heat shock protein HSP 90-alpha | / | 0.622 | |
| 4gqt | ADP | Heat shock protein 90 | / | 0.619 | |
| 2xk2 | ADP | Heat shock protein HSP 90-alpha | / | 0.614 | |
| 4xcj | ADP | Heat shock cognate 90 kDa protein | / | 0.598 | |
| 3vha | VHA | Heat shock protein HSP 90-alpha | / | 0.591 | |
| 2byh | 2D7 | Heat shock protein HSP 90-alpha | / | 0.587 | |
| 4ce1 | 7FK | ATP-dependent molecular chaperone HSP82 | / | 0.581 | |
| 4bqj | XKL | Heat shock protein HSP 90-alpha | / | 0.580 | |
| 1amw | ADP | ATP-dependent molecular chaperone HSP82 | / | 0.577 | |
| 3t0z | ATP | Heat shock protein HSP 90-alpha | / | 0.571 | |
| 1u2o | NEC | Endoplasmin | / | 0.569 | |
| 2byi | 2DD | Heat shock protein HSP 90-alpha | / | 0.568 | |
| 3ekr | PY9 | Heat shock protein HSP 90-alpha | / | 0.564 | |
| 3r4p | FU7 | Heat shock protein HSP 90-alpha | / | 0.564 | |
| 1ysz | NEC | Endoplasmin | / | 0.562 | |
| 3hhu | 819 | Heat shock protein HSP 90-alpha | / | 0.561 | |
| 3r4n | FU5 | Heat shock protein HSP 90-alpha | / | 0.561 | |
| 3rlq | 3RQ | Heat shock protein HSP 90-alpha | / | 0.559 | |
| 4jql | VJ6 | Heat shock protein HSP 90-alpha | / | 0.559 | |
| 4fcr | 0TM | Heat shock protein HSP 90-alpha | / | 0.557 | |
| 5f5r | ANP | Heat shock protein 75 kDa, mitochondrial | / | 0.557 | |
| 1u0z | RDC | Endoplasmin | / | 0.556 | |
| 2qg0 | A94 | Heat shock protein HSP 90-alpha | / | 0.554 | |
| 1am1 | ADP | ATP-dependent molecular chaperone HSP82 | / | 0.553 | |
| 4xc0 | ACP | Heat shock cognate 90 kDa protein | / | 0.550 | |
| 2gqp | PA7 | Endoplasmin | / | 0.549 | |
| 1bgq | RDC | ATP-dependent molecular chaperone HSP82 | / | 0.548 | |
| 2xcm | ADP | Cytosolic heat shock protein 90 | / | 0.547 | |
| 4ivg | ANP | TNF receptor-associated protein 1 | / | 0.547 | |
| 4xcl | AGS | Heat shock cognate 90 kDa protein | / | 0.547 | |
| 2hch | N5A | Endoplasmin | / | 0.545 | |
| 2iwu | NP5 | ATP-dependent molecular chaperone HSP82 | / | 0.545 | |
| 2bt0 | CT5 | Heat shock protein HSP 90-alpha | / | 0.543 | |
| 3r4o | FU3 | Heat shock protein HSP 90-alpha | / | 0.542 | |
| 1yc3 | 4BC | Heat shock protein HSP 90-alpha | / | 0.541 | |
| 2bre | KJ2 | ATP-dependent molecular chaperone HSP82 | / | 0.541 | |
| 2xx2 | 13C | ATP-dependent molecular chaperone HSP82 | / | 0.541 | |
| 4as9 | 4QS | ATP-dependent molecular chaperone HSP82 | / | 0.541 | |
| 2hg1 | N5O | Endoplasmin | / | 0.540 | |
| 2xht | C0Y | Heat shock protein HSP 90-alpha | / | 0.538 | |
| 2yeg | XQG | Heat shock protein HSP 90-alpha | / | 0.535 | |
| 2gfd | RDA | Endoplasmin | / | 0.533 | |
| 4ce2 | BO5 | ATP-dependent molecular chaperone HSP82 | / | 0.533 | |
| 4egi | B2J | Heat shock protein HSP 90-alpha | / | 0.533 | |
| 1osf | KOS | Heat shock protein HSP 90-alpha | / | 0.531 | |
| 1y4s | ADP | Chaperone protein HtpG | / | 0.531 | |
| 1yc1 | 4BC | Heat shock protein HSP 90-alpha | / | 0.531 | |
| 4asg | 814 | ATP-dependent molecular chaperone HSP82 | / | 0.531 | |
| 2wer | RDC | ATP-dependent molecular chaperone HSP82 | / | 0.530 | |
| 1uy7 | PU4 | Heat shock protein HSP 90-alpha | / | 0.526 | |
| 3c11 | GDM | ATP-dependent molecular chaperone HSP82 | / | 0.526 | |
| 1qy5 | NEC | Endoplasmin | / | 0.524 | |
| 2vw5 | BC6 | ATP-dependent molecular chaperone HSP82 | / | 0.522 | |
| 4ce3 | L4V | ATP-dependent molecular chaperone HSP82 | / | 0.521 | |
| 2brc | CT5 | ATP-dependent molecular chaperone HSP82 | / | 0.519 | |
| 1qy8 | RDI | Endoplasmin | / | 0.518 | |
| 3rlr | 3RR | Heat shock protein HSP 90-alpha | / | 0.518 | |
| 1uye | PU9 | Heat shock protein HSP 90-alpha | / | 0.517 | |
| 1yt0 | ADP | Endoplasmin | / | 0.515 | |
| 2wi6 | ZZ6 | Heat shock protein HSP 90-alpha | / | 0.515 | |
| 1u0y | PA7 | Endoplasmin | / | 0.514 | |
| 2bz5 | AB4 | Heat shock protein HSP 90-alpha | / | 0.514 | |
| 3k97 | 4CD | Heat shock protein HSP 90-alpha | / | 0.514 | |
| 2wep | ADP | ATP-dependent molecular chaperone HSP82 | / | 0.512 | |
| 2h55 | DZ8 | Heat shock protein HSP 90-alpha | / | 0.510 | |
| 2xd6 | XD6 | ATP-dependent molecular chaperone HSP82 | / | 0.509 | |
| 2o1u | ANP | Endoplasmin | / | 0.508 | |
| 2yee | 2EC | Heat shock protein HSP 90-alpha | / | 0.508 | |
| 4eft | EFT | Heat shock protein HSP 90-alpha | / | 0.508 | |
| 1uy8 | PU5 | Heat shock protein HSP 90-alpha | / | 0.507 | |
| 3ft8 | MOJ | Heat shock protein HSP 90-alpha | / | 0.507 | |
| 2bu8 | ADP | [Pyruvate dehydrogenase (acetyl-transferring)] kinase isozyme 2, mitochondrial | 2.7.11.2 | 0.506 | |
| 2fyp | RDE | Endoplasmin | / | 0.506 | |
| 3o0i | P54 | Heat shock protein HSP 90-alpha | / | 0.505 | |
| 3qdd | 94M | Heat shock protein HSP 90-alpha | / | 0.504 | |
| 1uym | PU3 | Heat shock protein HSP 90-beta | / | 0.503 | |
| 1yet | GDM | Heat shock protein HSP 90-alpha | / | 0.503 | |
| 3d0b | SNX | Heat shock protein HSP 90-alpha | / | 0.502 | |
| 4asf | 62U | ATP-dependent molecular chaperone HSP82 | / | 0.502 | |
| 4nh8 | 2LC | Heat shock protein HSP 90-alpha | / | 0.501 | |
| 3hek | BD0 | Heat shock protein HSP 90-alpha | / | 0.500 | |
| 1uy9 | PU6 | Heat shock protein HSP 90-alpha | / | 0.499 | |
| 2wi7 | 2KL | Heat shock protein HSP 90-alpha | / | 0.499 | |
| 3d2r | ADP | [Pyruvate dehydrogenase (acetyl-transferring)] kinase isozyme 4, mitochondrial | 2.7.11.2 | 0.499 | |
| 3inx | JZC | Heat shock protein HSP 90-alpha | / | 0.499 | |
| 3wha | WHA | Heat shock protein HSP 90-alpha | / | 0.499 | |
| 1d4a | FAD | NAD(P)H dehydrogenase [quinone] 1 | 1.6.5.2 | 0.498 | |
| 1uyk | PUX | Heat shock protein HSP 90-alpha | / | 0.495 | |
| 2exl | GDM | Endoplasmin | / | 0.495 | |
| 3b28 | B2X | Heat shock protein HSP 90-alpha | / | 0.495 | |
| 3o6o | 94M | Heat shock protein 83 | / | 0.495 | |
| 3q5l | KX2 | Heat shock protein 83-1 | / | 0.495 | |
| 1uyi | PUZ | Heat shock protein HSP 90-alpha | / | 0.494 | |
| 1uyh | PU0 | Heat shock protein HSP 90-alpha | / | 0.493 | |
| 2fwy | H64 | Heat shock protein HSP 90-alpha | / | 0.493 | |
| 4egk | RDC | Heat shock protein HSP 90-alpha | / | 0.493 | |
| 2qg2 | A91 | Heat shock protein HSP 90-alpha | / | 0.492 | |
| 2vwc | BC2 | ATP-dependent molecular chaperone HSP82 | / | 0.492 | |
| 2zdy | ADP | [Pyruvate dehydrogenase (acetyl-transferring)] kinase isozyme 4, mitochondrial | 2.7.11.2 | 0.492 | |
| 3hz1 | 42C | Heat shock protein HSP 90-alpha | / | 0.492 | |
| 2yki | YKI | Heat shock protein HSP 90-alpha | / | 0.491 | |
| 4efu | EFU | Heat shock protein HSP 90-alpha | / | 0.491 | |
| 2wi4 | ZZ4 | Heat shock protein HSP 90-alpha | / | 0.489 | |
| 2xhr | C0P | Heat shock protein HSP 90-alpha | / | 0.489 | |
| 3k98 | 1RC | Heat shock protein HSP 90-alpha | / | 0.489 | |
| 3opd | HIE | Heat shock protein 83 | / | 0.489 | |
| 2o1v | ADP | Endoplasmin | / | 0.488 | |
| 1gjv | AGS | [3-methyl-2-oxobutanoate dehydrogenase [lipoamide]] kinase, mitochondrial | 2.7.11.4 | 0.486 | |
| 3lqf | NAD | Galactitol dehydrogenase | / | 0.486 | |
| 3peh | IBD | Endoplasmin homolog, putative | / | 0.486 | |
| 2fwz | H71 | Heat shock protein HSP 90-alpha | / | 0.485 | |
| 3hyz | 42C | Heat shock protein HSP 90-alpha | / | 0.485 | |
| 3hz5 | Z64 | Heat shock protein HSP 90-alpha | / | 0.484 | |
| 3omu | IBD | Heat shock protein 83 | / | 0.484 | |
| 1i59 | ANP | Chemotaxis protein CheA | 2.7.13.3 | 0.481 | |
| 2iws | NP4 | ATP-dependent molecular chaperone HSP82 | / | 0.478 | |
| 3ied | AN2 | HSP90 | / | 0.477 | |
| 2wi5 | ZZ5 | Heat shock protein HSP 90-alpha | / | 0.476 | |
| 2xx4 | 13I | ATP-dependent molecular chaperone HSP82 | / | 0.475 | |
| 2cgf | P2N | ATP-dependent molecular chaperone HSP82 | / | 0.474 | |
| 1uy6 | PU3 | Heat shock protein HSP 90-alpha | / | 0.473 | |
| 1uyf | PU1 | Heat shock protein HSP 90-alpha | / | 0.473 | |
| 2esa | GDM | Endoplasmin | / | 0.473 | |
| 2fxs | RDA | ATP-dependent molecular chaperone HSP82 | / | 0.473 | |
| 1h69 | FAD | NAD(P)H dehydrogenase [quinone] 1 | 1.6.5.2 | 0.471 | |
| 2bu2 | ATP | [Pyruvate dehydrogenase (acetyl-transferring)] kinase isozyme 2, mitochondrial | 2.7.11.2 | 0.470 | |
| 3q5k | D1U | Heat shock protein 83-1 | / | 0.470 | |
| 1uyd | PU8 | Heat shock protein HSP 90-alpha | / | 0.469 | |
| 2qfo | A13 | Heat shock protein HSP 90-alpha | / | 0.469 | |
| 1uyc | PU7 | Heat shock protein HSP 90-alpha | / | 0.468 | |
| 4bqg | 50Q | Heat shock protein HSP 90-alpha | / | 0.467 | |
| 1p0h | ACO | Mycothiol acetyltransferase | 2.3.1.189 | 0.465 | |
| 3crl | ANP | [Pyruvate dehydrogenase (acetyl-transferring)] kinase isozyme 2, mitochondrial | 2.7.11.2 | 0.464 | |
| 3mnr | SD1 | Heat shock protein HSP 90-alpha | / | 0.463 | |
| 5a4k | FAD | NAD(P)H dehydrogenase [quinone] 1 | 1.6.5.2 | 0.462 | |
| 1jm6 | ADP | [Pyruvate dehydrogenase (acetyl-transferring)] kinase isozyme 2, mitochondrial | 2.7.11.2 | 0.461 | |
| 2yi5 | YI5 | Heat shock protein HSP 90-alpha | / | 0.461 | |
| 3eko | PYU | Heat shock protein HSP 90-alpha | / | 0.460 | |
| 1i5c | ADP | Chemotaxis protein CheA | 2.7.13.3 | 0.457 | |
| 1kbq | FAD | NAD(P)H dehydrogenase [quinone] 1 | 1.6.5.2 | 0.457 | |
| 3inw | JZB | Heat shock protein HSP 90-alpha | / | 0.457 | |
| 1nhh | ANP | DNA mismatch repair protein MutL | / | 0.456 | |
| 2vcj | 2EQ | Heat shock protein HSP 90-alpha | / | 0.456 | |
| 4hjf | C2E | GGDEF family protein | / | 0.456 | |
| 1qbg | FAD | NAD(P)H dehydrogenase [quinone] 1 | 1.6.5.2 | 0.455 | |
| 3so9 | 017 | Pol protein | / | 0.455 | |
| 1h66 | FAD | NAD(P)H dehydrogenase [quinone] 1 | 1.6.5.2 | 0.454 | |
| 1z5a | ADP | Type 2 DNA topoisomerase 6 subunit B | / | 0.454 | |
| 1e6w | NAD | 3-hydroxyacyl-CoA dehydrogenase type-2 | 1.1.1.35 | 0.453 | |
| 2e0a | ANP | [Pyruvate dehydrogenase (acetyl-transferring)] kinase isozyme 4, mitochondrial | 2.7.11.2 | 0.453 | |
| 2iwx | M1S | ATP-dependent molecular chaperone HSP82 | / | 0.453 | |
| 2qfo | A51 | Heat shock protein HSP 90-alpha | / | 0.453 | |
| 2vbd | V10 | Isopenicillin N synthase | 1.21.3.1 | 0.452 | |
| 2w9s | TOP | Dihydrofolate reductase type 1 from Tn4003 | 1.5.1.3 | 0.452 | |
| 4h1e | 10J | Beta-secretase 1 | 3.4.23.46 | 0.452 | |
| 4jaz | STL | Peroxisome proliferator-activated receptor gamma | / | 0.452 | |
| 1jio | DEB | 6-deoxyerythronolide B hydroxylase | / | 0.450 | |
| 1u4d | DBQ | Activated CDC42 kinase 1 | / | 0.450 | |
| 2yei | XQI | Heat shock protein HSP 90-alpha | / | 0.450 | |
| 4jau | ADP | Sensor histidine kinase | / | 0.450 | |
| 4r1f | ADP | DNA topoisomerase 2-alpha | 5.99.1.3 | 0.450 | |
| 5c1m | CLR | Mu-type opioid receptor | / | 0.450 | |
| 2p33 | J07 | Mitogen-activated protein kinase 10 | 2.7.11.24 | 0.449 | |
| 3fwg | CAM | Camphor 5-monooxygenase | 1.14.15.1 | 0.449 | |
| 3h4l | ANP | DNA mismatch repair protein PMS1 | / | 0.449 | |
| 1lf3 | EH5 | Plasmepsin-2 | 3.4.23.39 | 0.448 | |
| 1iol | EST | Estradiol 17-beta-dehydrogenase 1 | 1.1.1.62 | 0.447 | |
| 2oap | ANP | Type II secretion system protein (GspE-2) | / | 0.447 | |
| 2po7 | CHD | Ferrochelatase, mitochondrial | 4.99.1.1 | 0.447 | |
| 2zkj | ADP | [Pyruvate dehydrogenase (acetyl-transferring)] kinase isozyme 4, mitochondrial | 2.7.11.2 | 0.447 | |
| 4b78 | KGG | Beta-secretase 1 | 3.4.23.46 | 0.447 | |
| 1t13 | INI | 6,7-dimethyl-8-ribityllumazine synthase 2 | / | 0.446 | |
| 2cf6 | NAP | Cinnamyl alcohol dehydrogenase 5 | 1.1.1.195 | 0.446 | |
| 4nkv | AER | Steroid 17-alpha-hydroxylase/17,20 lyase | / | 0.446 | |
| 4z1f | H71 | Heat shock protein 75 kDa, mitochondrial | / | 0.446 | |
| 5jla | NAD | Putative short-chain dehydrogenase/reductase | / | 0.446 | |
| 1mx0 | ANP | Type 2 DNA topoisomerase 6 subunit B | / | 0.445 | |
| 1pvg | ANP | DNA topoisomerase 2 | 5.99.1.3 | 0.445 | |
| 1z59 | ADP | Type 2 DNA topoisomerase 6 subunit B | / | 0.445 | |
| 2vn0 | TDZ | Cytochrome P450 2C8 | / | 0.445 | |
| 3ha5 | SFG | Hydroxymycolate synthase MmaA4 | 2.1.1 | 0.445 | |
| 1pdh | FAS | p-hydroxybenzoate hydroxylase | / | 0.444 | |
| 1zxm | ANP | DNA topoisomerase 2-alpha | 5.99.1.3 | 0.444 | |
| 2uxu | NAR | HTH-type transcriptional regulator TtgR | / | 0.444 | |
| 3ada | NAD | Subunit alpha of sarocosine oxidase | / | 0.444 | |
| 4y9q | C2E | Uncharacterized protein | / | 0.444 | |
| 1rb3 | MTX | Dihydrofolate reductase | 1.5.1.3 | 0.443 | |
| 2qnp | QN2 | Gag-Pol polyprotein | 3.4.23.16 | 0.443 | |
| 4anv | 751 | Phosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform | 2.7.1.153 | 0.443 | |
| 4qmt | H1N | Serine/threonine-protein kinase 24 | 2.7.11.1 | 0.443 | |
| 1kbo | FAD | NAD(P)H dehydrogenase [quinone] 1 | 1.6.5.2 | 0.442 | |
| 1np7 | FAD | Cryptochrome DASH | / | 0.442 | |
| 1qnf | FAD | Deoxyribodipyrimidine photo-lyase | 4.1.99.3 | 0.442 | |
| 2v9j | ATP | 5'-AMP-activated protein kinase subunit gamma-1 | / | 0.442 | |
| 3keu | ATP | Pyridoxal kinase | 2.7.1.35 | 0.442 | |
| 4yau | 2AM | NADPH--cytochrome P450 reductase | / | 0.442 | |
| 1drh | NAP | Dihydrofolate reductase | 1.5.1.3 | 0.441 | |
| 1yb5 | NAP | Quinone oxidoreductase | 1.6.5.5 | 0.441 | |
| 2ijg | FAD | Cryptochrome DASH, chloroplastic/mitochondrial | / | 0.441 | |
| 2qim | ZEA | Class 10 plant pathogenesis-related protein | / | 0.441 | |
| 3ekw | DR7 | Gag-Pol polyprotein | 3.4.23.16 | 0.441 | |
| 3ozc | 4CT | S-methyl-5'-thioadenosine phosphorylase | / | 0.441 | |
| 1rfv | ADP | Pyridoxal kinase | 2.7.1.35 | 0.440 | |
| 3ko8 | NAD | NAD-dependent epimerase/dehydratase | / | 0.440 | |
| 3nug | NAD | Pyridoxal 4-dehydrogenase | 1.1.1.107 | 0.440 | |
| 3zpt | M8Y | Gag-Pol polyprotein | 3.4.23.16 | 0.440 | |
| 4qgi | ROC | Gag-Pol polyprotein | 3.4.23.16 | 0.440 |