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 |
|---|---|---|---|
| 4kyh | ZST | Lactoylglutathione lyase | 4.4.1.5 |
| PDB ID | HET | Uniprot Name | EC Number | Binding Site Similarity |
Align |
|---|---|---|---|---|---|
| 4kyh | ZST | Lactoylglutathione lyase | 4.4.1.5 | 1.000 | |
| 4pv5 | CBW | Lactoylglutathione lyase | 4.4.1.5 | 0.622 | |
| 4kyk | IMN | Lactoylglutathione lyase | 4.4.1.5 | 0.584 | |
| 1qip | GNB | Lactoylglutathione lyase | 4.4.1.5 | 0.563 | |
| 1fro | GSB | Lactoylglutathione lyase | 4.4.1.5 | 0.562 | |
| 3vw9 | HPJ | Lactoylglutathione lyase | 4.4.1.5 | 0.561 | |
| 2za0 | MGI | Lactoylglutathione lyase | 4.4.1.5 | 0.551 | |
| 3w0t | HPU | Lactoylglutathione lyase | 4.4.1.5 | 0.514 | |
| 3w0u | HPW | Lactoylglutathione lyase | 4.4.1.5 | 0.502 | |
| 1qin | GIP | Lactoylglutathione lyase | 4.4.1.5 | 0.498 | |
| 3zia | ADP | ATP synthase subunit beta, mitochondrial | 3.6.3.14 | 0.471 | |
| 1upw | 444 | Oxysterols receptor LXR-beta | / | 0.467 | |
| 3ar4 | TG1 | Sarcoplasmic/endoplasmic reticulum calcium ATPase 1 | 3.6.3.8 | 0.465 | |
| 3d3p | 20A | cAMP-specific 3',5'-cyclic phosphodiesterase 4B | 3.1.4.53 | 0.465 | |
| 4c1i | EH9 | cGMP-dependent 3',5'-cyclic phosphodiesterase | 3.1.4.17 | 0.465 | |
| 1kyx | CRM | 6,7-dimethyl-8-ribityllumazine synthase | 2.5.1.78 | 0.462 | |
| 4daj | 0HK | Muscarinic acetylcholine receptor M3 | / | 0.461 | |
| 3hmv | HBT | cAMP-specific 3',5'-cyclic phosphodiesterase 4B | 3.1.4.53 | 0.460 | |
| 4jq4 | IMN | Aldo-keto reductase family 1 member C2 | / | 0.460 | |
| 2nn7 | M29 | Carbonic anhydrase 1 | 4.2.1.1 | 0.459 | |
| 4qa0 | SHH | Histone deacetylase 8 | 3.5.1.98 | 0.459 | |
| 2fm0 | M98 | cAMP-specific 3',5'-cyclic phosphodiesterase 4D | 3.1.4.53 | 0.457 | |
| 2fm5 | M99 | cAMP-specific 3',5'-cyclic phosphodiesterase 4D | 3.1.4.53 | 0.457 | |
| 1blz | ACV | Isopenicillin N synthase | 1.21.3.1 | 0.456 | |
| 1nqx | RLP | 6,7-dimethyl-8-ribityllumazine synthase | 2.5.1.78 | 0.456 | |
| 1tbb | ROL | cAMP-specific 3',5'-cyclic phosphodiesterase 4D | 3.1.4.53 | 0.456 | |
| 2chw | 039 | Phosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform | 2.7.1.153 | 0.456 | |
| 1xor | ZAR | cAMP-specific 3',5'-cyclic phosphodiesterase 4D | 3.1.4.53 | 0.455 | |
| 3g4g | D71 | cAMP-specific 3',5'-cyclic phosphodiesterase 4D | 3.1.4.53 | 0.455 | |
| 4gue | QCT | Ribosomal protein S6 kinase alpha-3 | 2.7.11.1 | 0.455 | |
| 2o8h | 227 | cAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A | 3.1.4.17 | 0.454 | |
| 4g1n | NZT | Pyruvate kinase PKM | 2.7.1.40 | 0.454 | |
| 1mkd | ZAR | cAMP-specific 3',5'-cyclic phosphodiesterase 4D | 3.1.4.53 | 0.453 | |
| 1ro9 | 8BR | cAMP-specific 3',5'-cyclic phosphodiesterase 4B | 3.1.4.53 | 0.453 | |
| 3n5v | H4B | Nitric oxide synthase, brain | 1.14.13.39 | 0.453 | |
| 3ar5 | TG1 | Sarcoplasmic/endoplasmic reticulum calcium ATPase 1 | 3.6.3.8 | 0.452 | |
| 3ar6 | TG1 | Sarcoplasmic/endoplasmic reticulum calcium ATPase 1 | 3.6.3.8 | 0.452 | |
| 4ajd | F04 | cAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A | 3.1.4.17 | 0.452 | |
| 4ddl | 0JQ | cAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A | 3.1.4.17 | 0.451 | |
| 4i42 | 1HA | 1,4-dihydroxy-2-naphthoyl-CoA synthase | / | 0.451 | |
| 1ysx | 4EB | Serum albumin | / | 0.450 | |
| 3ar7 | TG1 | Sarcoplasmic/endoplasmic reticulum calcium ATPase 1 | 3.6.3.8 | 0.450 | |
| 3n39 | FMN | Protein NrdI | / | 0.450 | |
| 4qij | 1HA | 1,4-dihydroxy-2-naphthoyl-CoA synthase | / | 0.450 | |
| 2cl5 | BIE | Catechol O-methyltransferase | 2.1.1.6 | 0.449 | |
| 3v94 | WYQ | Phosphodiesterase | / | 0.449 | |
| 4jib | 1L6 | cGMP-dependent 3',5'-cyclic phosphodiesterase | 3.1.4.17 | 0.449 | |
| 1dgf | NDP | Catalase | 1.11.1.6 | 0.448 | |
| 2fmn | 4HF | 5,10-methylenetetrahydrofolate reductase | 1.5.1.20 | 0.448 | |
| 3qpn | PFK | cAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A | 3.1.4.17 | 0.448 | |
| 4bfr | J82 | Phosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit beta isoform | 2.7.1.153 | 0.448 | |
| 3d2d | REN | Reticuline oxidase | 1.21.3.3 | 0.447 | |
| 3hf6 | LX0 | Tryptophan 5-hydroxylase 1 | 1.14.16.4 | 0.447 | |
| 3n61 | H4B | Nitric oxide synthase, brain | 1.14.13.39 | 0.447 | |
| 5std | UNN | Scytalone dehydratase | 4.2.1.94 | 0.447 | |
| 3w5e | NVW | cAMP-specific 3',5'-cyclic phosphodiesterase 4B | 3.1.4.53 | 0.446 | |
| 4dbw | 511 | Aldo-keto reductase family 1 member C3 | / | 0.446 | |
| 4imu | H4B | Nitric oxide synthase, brain | 1.14.13.39 | 0.446 | |
| 4jpg | 1OX | Pyruvate kinase PKM | 2.7.1.40 | 0.446 | |
| 5bp9 | SAH | Putative methyltransferase protein | / | 0.446 | |
| 2vrb | NAP | Triphenylmethane reductase | / | 0.445 | |
| 2w3a | TOP | Dihydrofolate reductase | 1.5.1.3 | 0.445 | |
| 5liu | 388 | Aldo-keto reductase family 1 member B10 | 1.1.1 | 0.445 | |
| 1y2d | 4DE | cAMP-specific 3',5'-cyclic phosphodiesterase 4D | 3.1.4.53 | 0.444 | |
| 4kfj | 1R0 | Dihydrofolate reductase | 1.5.1.3 | 0.444 | |
| 1tg5 | 645 | 4-hydroxyphenylpyruvate dioxygenase | 1.13.11.27 | 0.443 | |
| 1zkn | IBM | cAMP-specific 3',5'-cyclic phosphodiesterase 4D | 3.1.4.53 | 0.443 | |
| 2y4m | GDX | Uncharacterized protein | / | 0.443 | |
| 3o56 | ZG1 | cAMP-specific 3',5'-cyclic phosphodiesterase 4B | 3.1.4.53 | 0.443 | |
| 3o57 | ZG2 | cAMP-specific 3',5'-cyclic phosphodiesterase 4B | 3.1.4.53 | 0.443 | |
| 4el9 | AFE | Ribosomal protein S6 kinase alpha-3 | 2.7.11.1 | 0.443 | |
| 1vaf | H4B | Nitric oxide synthase, inducible | 1.14.13.39 | 0.442 | |
| 2ati | IHU | Glycogen phosphorylase, liver form | 2.4.1.1 | 0.442 | |
| 2ovy | PFJ | cAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A | 3.1.4.17 | 0.442 | |
| 3g4k | ROL | cAMP-specific 3',5'-cyclic phosphodiesterase 4D | 3.1.4.53 | 0.442 | |
| 3qi4 | IBM | High affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A | / | 0.442 | |
| 3wd9 | QPC | cAMP-specific 3',5'-cyclic phosphodiesterase 4B | 3.1.4.53 | 0.442 | |
| 4bfs | ZVS | Pantothenate kinase | 2.7.1.33 | 0.442 | |
| 1obn | ASV | Isopenicillin N synthase | 1.21.3.1 | 0.441 | |
| 1zkl | IBM | High affinity cAMP-specific 3',5'-cyclic phosphodiesterase 7A | 3.1.4.53 | 0.441 | |
| 3sl6 | JN8 | cAMP-specific 3',5'-cyclic phosphodiesterase 4D | 3.1.4.53 | 0.441 | |
| 3sn7 | 540 | cAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A | 3.1.4.17 | 0.441 | |
| 4b12 | C23 | Glycylpeptide N-tetradecanoyltransferase | / | 0.441 | |
| 4qa2 | SHH | Histone deacetylase 8 | 3.5.1.98 | 0.441 | |
| 1dgh | NDP | Catalase | 1.11.1.6 | 0.440 | |
| 1oyn | ROL | cAMP-specific 3',5'-cyclic phosphodiesterase 4D | 3.1.4.53 | 0.440 | |
| 1y2c | 3DE | cAMP-specific 3',5'-cyclic phosphodiesterase 4D | 3.1.4.53 | 0.440 | |
| 2b1z | 17M | Estrogen receptor | / | 0.440 | |
| 2vqo | TFG | Histone deacetylase 4 | 3.5.1.98 | 0.440 | |
| 2yne | YNE | Glycylpeptide N-tetradecanoyltransferase | / | 0.440 | |
| 3o76 | GTB | Glutathione S-transferase P 1 | 2.5.1.18 | 0.440 |