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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
1eag A70 Candidapepsin-2 3.4.23.24

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
1eag A70Candidapepsin-2 3.4.23.24 1.367
1zap A70Candidapepsin-2 3.4.23.24 1.036
1gvt 2ZSEndothiapepsin 3.4.23.22 0.824
2jjj 0QSEndothiapepsin 3.4.23.22 0.823
1e82 M90Endothiapepsin 3.4.23.22 0.775
2jji 0QSEndothiapepsin 3.4.23.22 0.762
1od1 0QSEndothiapepsin 3.4.23.22 0.751
2g94 ZPQBeta-secretase 1 3.4.23.46 0.750
3duy AFJBeta-secretase 1 3.4.23.46 0.746
1e80 0GQEndothiapepsin 3.4.23.22 0.742
3dv1 AR9Beta-secretase 1 3.4.23.46 0.741
1bim 0QBRenin 3.4.23.15 0.739
2f3e AXQBeta-secretase 1 3.4.23.46 0.733
3own 3OXRenin 3.4.23.15 0.730
3i25 MV7Beta-secretase 1 3.4.23.46 0.729
3k5f AYHBeta-secretase 1 3.4.23.46 0.729
1bil 0IURenin 3.4.23.15 0.725
1gvv 0GMEndothiapepsin 3.4.23.22 0.725
1psa 0ZLPepsin A 3.4.23.1 0.725
2p4j 23IBeta-secretase 1 3.4.23.46 0.725
3ixj 586Beta-secretase 1 3.4.23.46 0.721
2fdp FRPBeta-secretase 1 3.4.23.46 0.719
3own 3OWRenin 3.4.23.15 0.709
3ixk 929Beta-secretase 1 3.4.23.46 0.708
2web PP4Penicillopepsin-1 3.4.23.20 0.702
1rne C60Renin 3.4.23.15 0.689
3k5g BJCBeta-secretase 1 3.4.23.46 0.688
2xfk AA9Beta-secretase 1 3.4.23.46 0.683
1gvw 0EMEndothiapepsin 3.4.23.22 0.682
3cid 318Beta-secretase 1 3.4.23.46 0.681
1e81 M91Endothiapepsin 3.4.23.22 0.680
1ppk IVVPenicillopepsin-1 3.4.23.20 0.680
2hb3 GRLProtease / 0.678
3dm6 757Beta-secretase 1 3.4.23.46 0.676
3r2f PB0Beta-secretase 1 3.4.23.46 0.674
2hiz LIJBeta-secretase 1 3.4.23.46 0.673
4ke0 1R8Beta-secretase 1 3.4.23.46 0.673
2f3f AXFBeta-secretase 1 3.4.23.46 0.672
2hm1 LIQBeta-secretase 1 3.4.23.46 0.671
3lzv 017Gag-Pol polyprotein 3.4.23.16 0.671
2b8v 3BNBeta-secretase 1 3.4.23.46 0.670
3k5c 0BIBeta-secretase 1 3.4.23.46 0.670
3vfa 031Gag-Pol polyprotein 3.4.23.16 0.670
1w6h TITPlasmepsin-2 3.4.23.39 0.669
2p8h MY9Beta-secretase 1 3.4.23.46 0.663
2qd7 065Gag-Pol polyprotein 3.4.23.16 0.662
3q70 RITCandidapepsin-2 3.4.23.24 0.662
3st5 G89Gag-Pol polyprotein 3.4.23.16 0.662
4njs G08Protease / 0.662
1ppl 1Z7Penicillopepsin-1 3.4.23.20 0.659
1ppm 0P1Penicillopepsin-1 3.4.23.20 0.659
1t7i 017Gag-Pol polyprotein 3.4.23.16 0.658
2wf1 ZY1Beta-secretase 1 3.4.23.46 0.658
3o99 K13Pol polyprotein / 0.658
4dqb 017Gag-Pol polyprotein / 0.658
4dqh 017Gag-Pol polyprotein / 0.658
4q1y 017Gag-Pol polyprotein 3.4.23.16 0.658
4dqe 017Gag-Pol polyprotein / 0.657
4j55 031Gag-Pol polyprotein 3.4.23.16 0.657
4j54 G52Gag-Pol polyprotein 3.4.23.16 0.656
2fdd 385Pol protein / 0.655
3nwx KVSGag-Pol polyprotein 3.4.23.16 0.655
2iqg F2IBeta-secretase 1 3.4.23.46 0.654
2xfj VG5Beta-secretase 1 3.4.23.46 0.654
4ke1 1R6Beta-secretase 1 3.4.23.46 0.653
3lzu 017Gag-Pol polyprotein 3.4.23.16 0.652
2wf2 ZY2Beta-secretase 1 3.4.23.46 0.651
3i6o GR6Gag-Pol polyprotein 3.4.23.16 0.651
1hpv 478Gag-Pol polyprotein / 0.650
3sab F78Protease / 0.650