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 |
|---|---|---|---|
| 4gkt | 0O1 | Queuine tRNA-ribosyltransferase | 2.4.2.29 |
| PDB ID | HET | Uniprot Name | EC Number | Binding Site Similarity |
Align |
|---|---|---|---|---|---|
| 4gkt | 0O1 | Queuine tRNA-ribosyltransferase | 2.4.2.29 | 1.000 | |
| 4gi4 | 0EX | Queuine tRNA-ribosyltransferase | 2.4.2.29 | 0.707 | |
| 3ge7 | AFQ | Queuine tRNA-ribosyltransferase | 2.4.2.29 | 0.699 | |
| 4fps | 0UX | Queuine tRNA-ribosyltransferase | 2.4.2.29 | 0.644 | |
| 4fsa | 0V3 | Queuine tRNA-ribosyltransferase | 2.4.2.29 | 0.629 | |
| 4gh3 | 0EV | Queuine tRNA-ribosyltransferase | 2.4.2.29 | 0.628 | |
| 4gh1 | 0WX | Queuine tRNA-ribosyltransferase | 2.4.2.29 | 0.605 | |
| 1y5v | NE8 | Queuine tRNA-ribosyltransferase | 2.4.2.29 | 0.574 | |
| 1y5w | NEZ | Queuine tRNA-ribosyltransferase | 2.4.2.29 | 0.561 | |
| 4gg9 | 0WW | Queuine tRNA-ribosyltransferase | 2.4.2.29 | 0.561 | |
| 3sm0 | AEK | Queuine tRNA-ribosyltransferase | 2.4.2.29 | 0.555 | |
| 1y5x | E89 | Queuine tRNA-ribosyltransferase | 2.4.2.29 | 0.528 | |
| 4fr1 | 0V2 | Queuine tRNA-ribosyltransferase | 2.4.2.29 | 0.525 | |
| 4giy | 0WY | Queuine tRNA-ribosyltransferase | 2.4.2.29 | 0.503 | |
| 1q66 | KMB | Queuine tRNA-ribosyltransferase | 2.4.2.29 | 0.483 | |
| 1k4g | AIQ | Queuine tRNA-ribosyltransferase | 2.4.2.29 | 0.475 | |
| 1q63 | AIQ | Queuine tRNA-ribosyltransferase | 2.4.2.29 | 0.472 | |
| 4gki | 0JN | Aminoglycoside 3'-phosphotransferase AphA1-IAB | / | 0.470 | |
| 2oal | FAD | Flavin-dependent tryptophan halogenase RebH | 1.14.19.9 | 0.465 | |
| 4fgc | PQ0 | NADPH-dependent 7-cyano-7-deazaguanine reductase | 1.7.1.13 | 0.465 | |
| 4fgr | ADP | Phosphoribosylaminoimidazole-succinocarboxamide synthase | 6.3.2.6 | 0.463 | |
| 2z02 | ATP | Phosphoribosylaminoimidazole-succinocarboxamide synthase | 6.3.2.6 | 0.459 | |
| 3cv9 | VDX | Vitamin D3 dihydroxylase | / | 0.459 | |
| 4gkh | 0J9 | Aminoglycoside 3'-phosphotransferase AphA1-IAB | / | 0.458 | |
| 4ia3 | BIV | Vitamin D3 receptor A | / | 0.456 | |
| 5bp9 | SAH | Putative methyltransferase protein | / | 0.455 | |
| 1t1s | CBQ | 1-deoxy-D-xylulose 5-phosphate reductoisomerase | 1.1.1.267 | 0.454 | |
| 3w0a | DS5 | Vitamin D3 receptor | / | 0.454 | |
| 4h3i | 10V | Beta-secretase 1 | 3.4.23.46 | 0.454 | |
| 4ia1 | BIV | Vitamin D3 receptor A | / | 0.454 | |
| 3a1l | 2CC | Cytochrome P450 | / | 0.453 | |
| 4ia7 | BIV | Vitamin D3 receptor A | / | 0.453 | |
| 1k4h | APQ | Queuine tRNA-ribosyltransferase | 2.4.2.29 | 0.452 | |
| 2azz | TCH | Phospholipase A2, major isoenzyme | 3.1.1.4 | 0.451 | |
| 3zsh | 469 | Mitogen-activated protein kinase 14 | / | 0.451 | |
| 4nc3 | ERM | 5-hydroxytryptamine receptor 2B | / | 0.451 | |
| 4q8p | CKR | Queuine tRNA-ribosyltransferase | 2.4.2.29 | 0.450 | |
| 1rc4 | DDF | Dihydrofolate reductase | 1.5.1.3 | 0.448 | |
| 2z1x | PRF | Queuine tRNA-ribosyltransferase | 2.4.2.29 | 0.448 | |
| 1ie9 | VDX | Vitamin D3 receptor | / | 0.447 | |
| 1s19 | MC9 | Vitamin D3 receptor | / | 0.447 | |
| 2hb7 | O1C | Vitamin D3 receptor | / | 0.447 | |
| 2ywv | ADP | Phosphoribosylaminoimidazole-succinocarboxamide synthase | / | 0.447 | |
| 3kpz | ZNE | Vitamin D3 receptor | / | 0.447 | |
| 3sn7 | 540 | cAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A | 3.1.4.17 | 0.447 | |
| 4ej1 | FOL | Dihydrofolate reductase | 1.5.1.3 | 0.447 | |
| 1db1 | VDX | Vitamin D3 receptor | / | 0.446 | |
| 3vrv | YSD | Vitamin D3 receptor | / | 0.446 | |
| 3vt9 | YI4 | Vitamin D3 receptor | / | 0.446 | |
| 1ie8 | KH1 | Vitamin D3 receptor | / | 0.443 | |
| 1kij | NOV | DNA gyrase subunit B | / | 0.443 | |
| 2qcu | FAD | Aerobic glycerol-3-phosphate dehydrogenase | 1.1.5.3 | 0.443 | |
| 3pm0 | BHF | Cytochrome P450 1B1 | / | 0.443 | |
| 3srs | M23 | Dihydrofolate reductase | 1.5.1.3 | 0.443 | |
| 3vtc | TK3 | Vitamin D3 receptor | / | 0.443 | |
| 4l17 | DNQ | Glutamate receptor 2 | / | 0.443 | |
| 1jum | BER | HTH-type transcriptional regulator QacR | / | 0.442 | |
| 3g70 | A5T | Renin | 3.4.23.15 | 0.442 | |
| 4b78 | KGG | Beta-secretase 1 | 3.4.23.46 | 0.442 | |
| 3sni | 546 | cAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A | 3.1.4.17 | 0.441 | |
| 1p44 | GEQ | Enoyl-[acyl-carrier-protein] reductase [NADH] | 1.3.1.9 | 0.440 | |
| 2ham | C33 | Vitamin D3 receptor | / | 0.440 | |
| 2vbp | VB1 | Isopenicillin N synthase | 1.21.3.1 | 0.440 | |
| 3g5s | FAD | Methylenetetrahydrofolate--tRNA-(uracil-5-)-methyltransferase TrmFO | / | 0.440 | |
| 3iro | 2CY | Bifunctional dihydrofolate reductase-thymidylate synthase | 1.5.1.3 | 0.440 | |
| 3vt5 | YI2 | Vitamin D3 receptor | / | 0.440 | |
| 3vtb | TKA | Vitamin D3 receptor | / | 0.440 | |
| 3zok | NAD | 3-dehydroquinate synthase, chloroplastic | 4.2.3.4 | 0.440 | |
| 4b72 | 2FB | Beta-secretase 1 | 3.4.23.46 | 0.440 | |
| 4cuk | NAI | D-lactate dehydrogenase | / | 0.440 |