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 Modes are compared using Grim.
For more information, please see the following publication:
Desaphy J. et al. Encoding Protein-Ligand Interaction Patterns in Fingerprints and Graphs J. Chem. Inf. Model., 2013, 53 (3), pp 623-637
Binding modes are considered as similar when the similarity value is greater than 0.65
| PDB ID | HET | Uniprot Name | EC Number |
|---|---|---|---|
| 1ptj | SND | NAD(P) transhydrogenase subunit alpha part 1 | 1.6.1.2 |
| PDB ID | HET | Uniprot Name | EC Number | Binding Mode Similarity |
Align |
|---|---|---|---|---|---|
| 1ptj | SND | NAD(P) transhydrogenase subunit alpha part 1 | 1.6.1.2 | 0.949 | |
| 1hzz | NAD | NAD(P) transhydrogenase subunit alpha part 1 | 1.6.1.2 | 0.794 | |
| 1u28 | NAD | NAD(P) transhydrogenase subunit alpha part 1 | 1.6.1.2 | 0.782 | |
| 2oor | NAD | NAD(P) transhydrogenase subunit alpha part 1 | 1.6.1.2 | 0.763 | |
| 2oo5 | TXD | NAD(P) transhydrogenase subunit alpha part 1 | 1.6.1.2 | 0.746 | |
| 2fsv | NAD | NAD(P) transhydrogenase subunit alpha part 1 | 1.6.1.2 | 0.738 | |
| 1l7e | NAI | NAD(P) transhydrogenase subunit alpha part 1 | 1.6.1.2 | 0.717 | |
| 1f8g | NAD | NAD(P) transhydrogenase subunit alpha part 1 | 1.6.1.2 | 0.713 | |
| 2vhw | NAI | Alanine dehydrogenase | 1.4.1.1 | 0.687 | |
| 3qvt | NAI | Myo-inositol-1-phosphate synthase (Ino1) | / | 0.687 | |
| 3ec7 | NAD | Inositol 2-dehydrogenase | / | 0.683 | |
| 2xyr | SFG | Replicase polyprotein 1ab | 2.1.1 | 0.681 | |
| 4yuv | S4M | Spermidine synthase, putative | / | 0.680 | |
| 5ccx | SAH | tRNA (adenine(58)-N(1))-methyltransferase catalytic subunit TRMT61A | 2.1.1.220 | 0.679 | |
| 1x15 | NAD | NAD(P) transhydrogenase subunit alpha | 1.6.1.2 | 0.678 | |
| 2vhx | NAD | Alanine dehydrogenase | 1.4.1.1 | 0.678 | |
| 2o07 | MTA | Spermidine synthase | 2.5.1.16 | 0.677 | |
| 3go4 | SAH | Uncharacterized protein | / | 0.677 | |
| 3qvw | NAD | Myo-inositol-1-phosphate synthase (Ino1) | / | 0.676 | |
| 3wv8 | ATP | Hmd co-occurring protein HcgE | / | 0.676 | |
| 3qvx | NAD | Myo-inositol-1-phosphate synthase (Ino1) | / | 0.675 | |
| 1lld | NAD | L-lactate dehydrogenase 2 | 1.1.1.27 | 0.670 | |
| 1x7d | NAD | Putative ornithine cyclodeaminase | / | 0.670 | |
| 2q1u | NAD | Putative nucleotide sugar epimerase/ dehydratase | / | 0.667 | |
| 3duw | SAH | O-methyltransferase, putative | / | 0.666 | |
| 4yv2 | S4M | Spermidine synthase, putative | / | 0.666 | |
| 2yqz | SAM | Uncharacterized protein | / | 0.664 | |
| 4yuz | S4M | Spermidine synthase, putative | / | 0.664 | |
| 3i53 | SAH | 2,7-dihydroxy-5-methyl-1-naphthoate 7-O-methyltransferase | / | 0.663 | |
| 4gdp | FAD | Polyamine oxidase FMS1 | / | 0.663 | |
| 1p1h | NAD | Inositol-3-phosphate synthase | 5.5.1.4 | 0.662 | |
| 2bm9 | SAM | Cephalosporin hydroxylase CmcI | / | 0.662 | |
| 2vhz | NAI | Alanine dehydrogenase | 1.4.1.1 | 0.662 | |
| 5fa5 | MTA | Protein arginine N-methyltransferase 5 | / | 0.661 | |
| 1u2d | NAD | NAD(P) transhydrogenase subunit alpha part 1 | 1.6.1.2 | 0.660 | |
| 3a26 | MTA | tRNA(Phe) (4-demethylwyosine(37)-C(7)) aminocarboxypropyltransferase | / | 0.660 | |
| 1jq3 | AAT | Polyamine aminopropyltransferase | / | 0.659 | |
| 1p1i | NAD | Inositol-3-phosphate synthase | 5.5.1.4 | 0.659 | |
| 3wv7 | ADP | Hmd co-occurring protein HcgE | / | 0.659 | |
| 4k28 | NAD | Shikimate dehydrogenase family protein | / | 0.659 | |
| 3dlc | SAM | SAM (And some other nucleotide) binding motif:Generic methyltransferase | / | 0.658 | |
| 3uko | NAD | Alcohol dehydrogenase class-3 | / | 0.658 | |
| 1y8q | ATP | SUMO-activating enzyme subunit 2 | 6.3.2 | 0.657 | |
| 3grv | ADN | Probable ribosomal RNA small subunit methyltransferase A | / | 0.657 | |
| 3ldg | SAH | Uncharacterized protein | / | 0.657 | |
| 1la2 | NAD | Inositol-3-phosphate synthase | 5.5.1.4 | 0.656 | |
| 1jki | NAI | Inositol-3-phosphate synthase | 5.5.1.4 | 0.655 | |
| 1r37 | NAD | NAD-dependent alcohol dehydrogenase | 1.1.1.1 | 0.655 | |
| 2dt5 | NAD | Redox-sensing transcriptional repressor Rex | / | 0.655 | |
| 5jr3 | SAH | Carminomycin 4-O-methyltransferase DnrK | 2.1.1.292 | 0.655 | |
| 1u2g | APR | NAD(P) transhydrogenase subunit alpha part 1 | 1.6.1.2 | 0.654 | |
| 3pvz | NAD | UDP-N-acetylglucosamine 4,6-dehydratase | / | 0.652 | |
| 5e9w | SAH | mRNA cap guanine-N7 methyltransferase | 2.1.1.56 | 0.652 | |
| 2yy7 | NAD | L-threonine dehydrogenase | / | 0.651 | |
| 3qvs | NAD | Myo-inositol-1-phosphate synthase (Ino1) | / | 0.651 | |
| 4xcx | SAH | Small RNA 2'-O-methyltransferase | / | 0.651 | |
| 1xcb | NAD | Redox-sensing transcriptional repressor Rex | / | 0.650 | |
| 2qg4 | NAD | UDP-glucose 6-dehydrogenase | 1.1.1.22 | 0.650 | |
| 3ou6 | SAM | SAM-dependent methyltransferase | / | 0.650 |