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sc-PDB

An Annotated Database of Druggable Binding Sites from the Protein DataBank

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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
1nm1 ATP Major actin

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
1nm1 ATPMajor actin / 1.072
3a5m ATPMajor actin / 0.959
1nlv ATPMajor actin / 0.933
1nmd ATPMajor actin / 0.918
1yxq ATPActin, alpha skeletal muscle / 0.881
3m6g ATPActin, alpha skeletal muscle / 0.862
1kxp ATPActin, alpha skeletal muscle / 0.861
3mn6 ATPActin-5C / 0.849
2v51 ATPActin, alpha skeletal muscle / 0.844
3a5o ATPMajor actin / 0.829
3w3d ATPActin, gamma-enteric smooth muscle / 0.827
1c0f ATPMajor actin / 0.803
3mn7 ATPActin-5C / 0.802
2a41 ATPActin, alpha skeletal muscle / 0.801
2p9k ATPActin-related protein 2 / 0.799
1eqy ATPActin, alpha skeletal muscle / 0.793
1t44 ATPActin, alpha skeletal muscle / 0.791
1wua ATPActin, alpha skeletal muscle / 0.789
3daw ATPActin, alpha skeletal muscle / 0.789
4k41 ATPActin, alpha skeletal muscle / 0.787
1qz5 ATPActin, alpha skeletal muscle / 0.785
4pkh ADPActin, alpha skeletal muscle / 0.781
3d2e ATPHeat shock protein homolog SSE1 / 0.778
3chw ATPMajor actin / 0.775
4b1v ATPActin, alpha skeletal muscle / 0.775
4pkg ATPActin, alpha skeletal muscle / 0.774
4jhd ANPActin-5C / 0.758
1dej ATPMajor actin / 0.756
3eks ATPActin-5C / 0.753
4cbx ATPActin-2 / 0.752
2q97 ATPActin, alpha skeletal muscle / 0.750
3mn9 ATPActin-5C / 0.749
1s22 ATPActin, alpha skeletal muscle / 0.744
3tu5 ATPActin, alpha skeletal muscle / 0.743
3el2 ATPActin-5C / 0.742
4pl8 ATPActin, alpha skeletal muscle / 0.742
1mdu ATPActin, alpha skeletal muscle / 0.741
4pki ATPActin, alpha skeletal muscle / 0.736
2oan ATPActin, cytoplasmic 1 / 0.732
3ule ATPActin-related protein 2 / 0.724
1ijj ATPActin, alpha skeletal muscle / 0.723
2q36 ATPActin, alpha skeletal muscle / 0.718
4ci6 ATPActin / 0.718
3wt0 ATPCell division protein FtsA / 0.716
1atn ATPActin, alpha skeletal muscle / 0.712
4m63 ATPActin-5C / 0.712
3eku ATPActin-5C / 0.707
2zgz GNPPlasmid segregation protein ParM / 0.692
4a61 ANPPlasmid segregation protein ParM / 0.692
3u4l ATPActin, cytoplasmic 1 / 0.689
1rgi ATPActin, alpha skeletal muscle / 0.688
1ngb ADPHeat shock cognate 71 kDa protein / 0.687
1rfq ATPActin, alpha skeletal muscle / 0.679
1h1v ATPActin, alpha skeletal muscle / 0.676
2d0o ADPDiol dehydratase-reactivating factor alpha subunit / 0.674
3wqu ATPCell division protein FtsA / 0.674
3m1f ATPActin, alpha skeletal muscle / 0.666
1ats ADPHeat shock cognate 71 kDa protein / 0.662
3fe1 ADPHeat shock 70 kDa protein 6 / 0.659
5f1x ATP78 kDa glucose-regulated protein / 0.658
1ngd ADPHeat shock cognate 71 kDa protein / 0.657
5ce3 ATPActin / 0.656
2fsn ADPArchaeal actin homolog / 0.654
2gyw OBIAcetylcholinesterase 3.1.1.7 0.654
2yeg XQGHeat shock protein HSP 90-alpha / 0.654
3ldl ATP78 kDa glucose-regulated protein / 0.650