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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
2bpz 3IN Gag-Pol polyprotein 3.4.23.16

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
2bpz 3INGag-Pol polyprotein 3.4.23.16 1.111
2bpy 3INGag-Pol polyprotein 3.4.23.16 1.015
2bpv 1INGag-Pol polyprotein 3.4.23.16 0.810
1hsh MK1Gag-Pol polyprotein / 0.805
1hsg MK1Gag-Pol polyprotein / 0.790
1w5x BE5Gag-Pol polyprotein 3.4.23.16 0.781
1ec0 BEDGag-Pol polyprotein 3.4.23.16 0.770
1d4i BEGGag-Pol polyprotein 3.4.23.16 0.761
1k6p XN3Gag-Pol polyprotein 3.4.23.16 0.758
1k6v XN2Gag-Pol polyprotein 3.4.23.16 0.755
1k6t XN1Gag-Pol polyprotein 3.4.23.16 0.753
1eby BEBGag-Pol polyprotein 3.4.23.16 0.748
1daz 0Q4Gag-Pol polyprotein 3.4.23.16 0.747
2avv MK1Gag-Pol polyprotein 3.4.23.16 0.746
2r5q 1UNGag-Pol polyprotein / 0.734
2bpw 1INGag-Pol polyprotein 3.4.23.16 0.732
2pyn 1UNGag-Pol polyprotein 3.4.23.16 0.731
3eky DR7Gag-Pol polyprotein 3.4.23.16 0.723
1iiq 0ZRGag-Pol polyprotein 3.4.23.16 0.722
1d4h BEHGag-Pol polyprotein 3.4.23.16 0.718
1c70 L75Protease / 0.716
1k6c MK1Gag-Pol polyprotein 3.4.23.16 0.709
1w5y BE6Gag-Pol polyprotein 3.4.23.16 0.709
2r5p MK1Gag-Pol polyprotein / 0.709
1ec1 BEEGag-Pol polyprotein 3.4.23.16 0.705
3ekp 478Gag-Pol polyprotein 3.4.23.16 0.705
1bdr IM1Gag-Pol polyprotein 3.4.23.16 0.704
3ndu ROCGag-Pol polyprotein 3.4.23.16 0.704
1odw 0E8Gag-Pol polyprotein 3.4.23.16 0.701
1b6m PI6Gag-Pol polyprotein 3.4.23.16 0.699
3k4v ROCGag-Pol polyprotein 3.4.23.16 0.698
2bpx MK1Gag-Pol polyprotein 3.4.23.16 0.697
3bvb 017Gag-Pol polyprotein 3.4.23.16 0.693
1w5v BE3Gag-Pol polyprotein 3.4.23.16 0.688
2rkf AB1Pol protein / 0.688
3lit E15Protease / 0.688
2rkg AB1Pol protein / 0.685
2bqv A1AProtease / 0.682
1d4j MSCGag-Pol polyprotein 3.4.23.16 0.680
2nnk ROCProtease / 0.679
2cej 1AHPol protein / 0.677
1t7j 478Gag-Pol polyprotein 3.4.23.16 0.674
1b6l PI4Gag-Pol polyprotein 3.4.23.16 0.673
1ebw BEIGag-Pol polyprotein 3.4.23.16 0.673
3liq E14Protease / 0.671
3ekq ROCGag-Pol polyprotein 3.4.23.16 0.668
3el5 1UNGag-Pol polyprotein / 0.667
1izh Q50Protease / 0.666
2a1e IPFGag-Pol polyprotein 3.4.23.16 0.665
3el9 DR7Gag-Pol polyprotein 3.4.23.16 0.665
2pk5 075Protease / 0.664
1zsf 0ZSGag-Pol polyprotein 3.4.23.16 0.663
1d4k PI8Gag-Pol polyprotein 3.4.23.16 0.661
4hdb G52Gag-Pol polyprotein 3.4.23.16 0.661
2p3c 3TLProtease / 0.660
2pk6 O33V-1 protease / 0.660
2r3w G3GGag-Pol polyprotein 3.4.23.16 0.657
3gi4 K60Gag-Pol polyprotein / 0.657
1vik BAYGag-Pol polyprotein / 0.656
2qd7 065Gag-Pol polyprotein 3.4.23.16 0.656
4hdp G52Gag-Pol polyprotein 3.4.23.16 0.656
2i4v DJRV-1 protease / 0.652
2nnp ROCProtease / 0.651
2wkz 5AHGag-Pol polyprotein / 0.651
3a2o KNJGag-Pol polyprotein 3.4.23.16 0.650