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 |
|---|---|---|---|
| 1tg2 | H2B | Phenylalanine-4-hydroxylase | 1.14.16.1 |
| PDB ID | HET | Uniprot Name | EC Number | Binding Site Similarity |
Align |
|---|---|---|---|---|---|
| 1tg2 | H2B | Phenylalanine-4-hydroxylase | 1.14.16.1 | 1.000 | |
| 1lrm | HBI | Phenylalanine-4-hydroxylase | 1.14.16.1 | 0.625 | |
| 1dmw | HBI | Phenylalanine-4-hydroxylase | 1.14.16.1 | 0.616 | |
| 1j8u | H4B | Phenylalanine-4-hydroxylase | 1.14.16.1 | 0.605 | |
| 5pah | LDP | Phenylalanine-4-hydroxylase | 1.14.16.1 | 0.601 | |
| 4pah | LNR | Phenylalanine-4-hydroxylase | 1.14.16.1 | 0.585 | |
| 2toh | HBI | Tyrosine 3-monooxygenase | 1.14.16.2 | 0.576 | |
| 3pah | XDE | Phenylalanine-4-hydroxylase | 1.14.16.1 | 0.534 | |
| 3up3 | XCA | aceDAF-12 | / | 0.488 | |
| 4h6p | FMN | Chromate reductase | / | 0.477 | |
| 3n3z | IBM | High affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A | / | 0.476 | |
| 4xd1 | T3Q | Qdtf | / | 0.475 | |
| 3bxx | QUE | Dihydroflavonol 4-reductase | 1.1.1.219 | 0.469 | |
| 1swt | BTN | Streptavidin | / | 0.468 | |
| 3bt9 | DEQ | HTH-type transcriptional regulator QacR | / | 0.468 | |
| 3hf6 | LX0 | Tryptophan 5-hydroxylase 1 | 1.14.16.4 | 0.468 | |
| 4xcz | T3Q | Qdtf | / | 0.467 | |
| 3dy8 | 5GP | High affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A | / | 0.466 | |
| 1tl7 | ONM | Adenylate cyclase type 2 | / | 0.465 | |
| 1tl7 | ONM | Adenylate cyclase type 5 | / | 0.465 | |
| 3c3d | FO1 | 2-phospho-L-lactate transferase | / | 0.465 | |
| 1sre | HAB | Streptavidin | / | 0.463 | |
| 1kw0 | H4B | Phenylalanine-4-hydroxylase | 1.14.16.1 | 0.462 | |
| 4xwt | U5P | Ribonuclease J | / | 0.462 | |
| 3dyq | PCG | High affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A | / | 0.461 | |
| 4g2j | 0WF | High affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A | / | 0.461 | |
| 5doz | NDP | JamJ | / | 0.460 | |
| 1hb1 | OCV | Isopenicillin N synthase | 1.21.3.1 | 0.459 | |
| 2zu9 | GDP | Mannosyl-3-phosphoglycerate synthase | 2.4.1.217 | 0.459 | |
| 5dp2 | NAP | CurF | / | 0.459 | |
| 1axw | MTX | Thymidylate synthase | / | 0.458 | |
| 2fhn | BNI | Avidin-related protein 4/5 | / | 0.458 | |
| 2lba | CHO | Fatty acid binding protein 6 | / | 0.458 | |
| 1obn | ASV | Isopenicillin N synthase | 1.21.3.1 | 0.457 | |
| 2ea4 | F79 | Methionine aminopeptidase 2 | / | 0.457 | |
| 3jsi | WTC | High affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A | / | 0.457 | |
| 3k3h | BYE | High affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A | / | 0.457 | |
| 1dr4 | HBI | Dihydrofolate reductase | 1.5.1.3 | 0.456 | |
| 2rto | IMI | Streptavidin | / | 0.455 | |
| 4e90 | 7RG | High affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A | / | 0.455 | |
| 1mkd | ZAR | cAMP-specific 3',5'-cyclic phosphodiesterase 4D | 3.1.4.53 | 0.454 | |
| 3oaf | OAG | Dihydrofolate reductase | 1.5.1.3 | 0.454 | |
| 4c3y | ANB | 3-ketosteroid dehydrogenase | / | 0.454 | |
| 4kbn | 25U | Dihydrofolate reductase | 1.5.1.3 | 0.454 | |
| 2vn1 | FK5 | Peptidylprolyl isomerase | / | 0.453 | |
| 3nmp | PYV | Abscisic acid receptor PYL2 | / | 0.453 | |
| 3nxo | D2B | Dihydrofolate reductase | 1.5.1.3 | 0.453 | |
| 4dre | NAI | Enoyl-[acyl-carrier-protein] reductase [NADH] | 1.3.1.9 | 0.452 | |
| 3owu | EQU | Steroid Delta-isomerase | 5.3.3.1 | 0.451 | |
| 3zvm | ADP | Bifunctional polynucleotide phosphatase/kinase | 2.7.1.78 | 0.451 | |
| 4psb | GA3 | Cytokinin-specific binding protein | / | 0.451 | |
| 2a5c | 8DA | Avidin | / | 0.450 | |
| 2rtn | IMI | Streptavidin | / | 0.450 | |
| 3fsj | D7K | Benzoylformate decarboxylase | 4.1.1.7 | 0.450 | |
| 3mjr | AC2 | Deoxycytidine kinase | 2.7.1.74 | 0.450 | |
| 4ax9 | N5N | Prothrombin | 3.4.21.5 | 0.450 | |
| 4b12 | C23 | Glycylpeptide N-tetradecanoyltransferase | / | 0.450 | |
| 1y2b | DEE | cAMP-specific 3',5'-cyclic phosphodiesterase 4D | 3.1.4.53 | 0.449 | |
| 3g4g | D71 | cAMP-specific 3',5'-cyclic phosphodiesterase 4D | 3.1.4.53 | 0.449 | |
| 4e0u | 0MV | Cyclic dipeptide N-prenyltransferase | / | 0.449 | |
| 4ozt | P1A | Ecdysone receptor, putative | / | 0.449 | |
| 1jra | FAD | FAD-linked sulfhydryl oxidase ERV2 | 1.8.3.2 | 0.448 | |
| 2fm5 | M99 | cAMP-specific 3',5'-cyclic phosphodiesterase 4D | 3.1.4.53 | 0.448 | |
| 3dys | IBM | High affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A | / | 0.448 | |
| 3zku | HCV | Isopenicillin N synthase | 1.21.3.1 | 0.448 | |
| 4wx2 | F6F | Tryptophan synthase alpha chain | / | 0.448 | |
| 4wx2 | F6F | Tryptophan synthase beta chain | 4.2.1.20 | 0.448 | |
| 1zdw | FLV | Prenyltransferase | / | 0.447 | |
| 2yy2 | IBM | High affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A | / | 0.447 | |
| 3jsw | JAR | High affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A | / | 0.447 | |
| 1ldq | SHM | Avidin | / | 0.446 | |
| 3hxb | BD5 | Geranylgeranyl transferase type-2 subunit beta | 2.5.1.60 | 0.446 | |
| 4bfx | ZVX | Pantothenate kinase | 2.7.1.33 | 0.446 | |
| 4j6d | TES | Cytochrome P450 monooxygenase | / | 0.446 | |
| 4xo7 | ASD | Aldo-keto reductase family 1 member C2 | / | 0.446 | |
| 1ad3 | NAD | Aldehyde dehydrogenase, dimeric NADP-preferring | / | 0.445 | |
| 1kyv | RBF | 6,7-dimethyl-8-ribityllumazine synthase | 2.5.1.78 | 0.445 | |
| 3gn7 | 3GN | Poly [ADP-ribose] polymerase 1 | 2.4.2.30 | 0.445 | |
| 3uyk | 0CX | Probable NDP-rhamnosyltransferase | / | 0.445 | |
| 5d7q | 4I5 | NAD-dependent protein deacetylase sirtuin-2 | 3.5.1 | 0.445 | |
| 5irn | ADP | Nucleotide binding oligomerization domain containing 2 | / | 0.445 | |
| 1dgf | NDP | Catalase | 1.11.1.6 | 0.444 | |
| 2ivi | ACW | Isopenicillin N synthase | 1.21.3.1 | 0.444 | |
| 3dyq | IBM | High affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A | / | 0.444 | |
| 3nxv | D2F | Dihydrofolate reductase | 1.5.1.3 | 0.444 | |
| 3up0 | D7S | aceDAF-12 | / | 0.444 | |
| 3zhq | TPP | Multifunctional 2-oxoglutarate metabolism enzyme | 1.2.4.2 | 0.444 | |
| 1h69 | ARH | NAD(P)H dehydrogenase [quinone] 1 | 1.6.5.2 | 0.443 | |
| 2ipj | FFA | Aldo-keto reductase family 1 member C2 | / | 0.443 | |
| 3g58 | 988 | cAMP-specific 3',5'-cyclic phosphodiesterase 4D | 3.1.4.53 | 0.443 | |
| 4bfu | ZVU | Pantothenate kinase | 2.7.1.33 | 0.443 | |
| 5kgp | ACO | Predicted acetyltransferase | / | 0.443 | |
| 1h66 | RH1 | NAD(P)H dehydrogenase [quinone] 1 | 1.6.5.2 | 0.442 | |
| 1rxj | BNI | Streptavidin | / | 0.442 | |
| 1uzw | CDH | Isopenicillin N synthase | 1.21.3.1 | 0.442 | |
| 3dyl | PCG | High affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A | / | 0.442 | |
| 3k3e | PDB | High affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A | / | 0.442 | |
| 4gh6 | LUO | High affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A | / | 0.442 | |
| 1ry0 | PG2 | Aldo-keto reductase family 1 member C3 | / | 0.441 | |
| 1srh | MOB | Streptavidin | / | 0.441 | |
| 2chx | 090 | Phosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform | 2.7.1.153 | 0.441 | |
| 2f7x | 4EA | cAMP-dependent protein kinase catalytic subunit alpha | 2.7.11.11 | 0.441 | |
| 2r0p | K2C | Putative FAD-monooxygenase | / | 0.441 | |
| 2x7h | PFN | Prostaglandin reductase 3 | 1 | 0.441 | |
| 3dy8 | IBM | High affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A | / | 0.441 | |
| 3g1r | FIT | 3-oxo-5-beta-steroid 4-dehydrogenase | / | 0.441 | |
| 3oew | NAD | Enoyl-[acyl-carrier-protein] reductase [NADH] | 1.3.1.9 | 0.441 | |
| 3qi4 | IBM | High affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A | / | 0.441 | |
| 4a32 | 2CD | Glycylpeptide N-tetradecanoyltransferase | / | 0.441 | |
| 1xh8 | R55 | cAMP-dependent protein kinase catalytic subunit alpha | 2.7.11.11 | 0.440 | |
| 2rds | 1PL | 1-deoxypentalenic acid 11-beta-hydroxylase | 1.14.11.35 | 0.440 | |
| 4euf | NAD | Trans-2-enoyl-CoA reductase [NADH] | / | 0.440 | |
| 4fam | 0SZ | Aldo-keto reductase family 1 member C3 | / | 0.440 | |
| 4rn6 | 15U | Prothrombin | 3.4.21.5 | 0.440 | |
| 4u16 | 3C0 | Muscarinic acetylcholine receptor M3 | / | 0.440 |