Logo scPDB

sc-PDB

An Annotated Database of Druggable Binding Sites from the Protein DataBank

Logo CNRS Logo Unistra
Distribution of Interaction pattern similarity measured by Grim
You can zoom onto the graph by using the mouse to make a selection

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


Reference Protein Data Bank Entry :
PDB ID HET Uniprot Name EC Number
3rk1 ATP N-type ATP pyrophosphatase superfamily

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
3rk1 ATPN-type ATP pyrophosphatase superfamily / 1.021
1mb9 ATPCarboxyethyl-arginine beta-lactam-synthase 6.3.3.4 0.696
2egw SAHRibosomal RNA small subunit methyltransferase E 2.1.1.193 0.692
4fak SAMRibosomal RNA large subunit methyltransferase H / 0.686
3o7b SAHRibosomal RNA small subunit methyltransferase Nep1 / 0.685
3oii SAHRibosomal RNA small subunit methyltransferase NEP1 / 0.684
4x3l MTARNA 2'-O ribose methyltransferase / 0.684
1jgt APCCarboxyethyl-arginine beta-lactam-synthase 6.3.3.4 0.682
1j21 ATPArgininosuccinate synthase / 0.676
1j1z ATPArgininosuccinate synthase / 0.675
5a7y SAHtRNA (adenine(9)-N1)-methyltransferase 2.1.1.218 0.672
2cx8 SAHRibosomal RNA small subunit methyltransferase E / 0.669
5ahw CMPUniversal stress protein family protein, putative / 0.668
1kh2 ATPArgininosuccinate synthase / 0.667
2ha8 SAHProbable methyltransferase TARBP1 / 0.666
2yy8 MTAtRNA (cytidine(56)-2'-O)-methyltransferase / 0.665
4xfj ANPArgininosuccinate synthase / 0.665
2hma SAMtRNA-specific 2-thiouridylase MnmA / 0.664
4pzk SAHPutative tRNA (cytidine(34)-2'-O)-methyltransferase / 0.664
2yy8 SAMtRNA (cytidine(56)-2'-O)-methyltransferase / 0.662
2pca SAHDiphthine synthase / 0.657
2qmm SAMtRNA (pseudouridine(54)-N(1))-methyltransferase / 0.654
4jwh SAHtRNA (guanine(9)-N1)-methyltransferase / 0.651