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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
1g2k NM1 Gag-Pol polyprotein 3.4.23.16

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
1g2k NM1Gag-Pol polyprotein 3.4.23.16 1.411
1ajv NMBGag-Pol polyprotein 3.4.23.16 1.245
1g35 AHFGag-Pol polyprotein 3.4.23.16 1.076
1ajx AH1Gag-Pol polyprotein 3.4.23.16 0.764
1sbg IM1Gag-Pol polyprotein / 0.732
3kdc JZPGag-Pol polyprotein 3.4.23.16 0.726
1fff 0Q4Gag-Pol polyprotein 3.4.23.16 0.721
3r4b 74TGag-Pol polyprotein / 0.715
2z4o 065Gag-Pol polyprotein 3.4.23.16 0.714
1mes DMPGag-Pol polyprotein 3.4.23.16 0.712
1bdr IM1Gag-Pol polyprotein 3.4.23.16 0.708
2fle AIProtease / 0.705
2pk6 O33V-1 protease / 0.701
2i4u DJRProtease / 0.699
3o9i A61Gag-Pol polyprotein / 0.697
3eky DR7Gag-Pol polyprotein 3.4.23.16 0.696
1ebz BECGag-Pol polyprotein 3.4.23.16 0.695
2bbb HH1Gag-Pol polyprotein 3.4.23.16 0.695
1a94 0Q4Gag-Pol polyprotein 3.4.23.16 0.694
1izh Q50Protease / 0.693
2a1e IPFGag-Pol polyprotein 3.4.23.16 0.691
1qbr XV6Gag-Pol polyprotein 3.4.23.16 0.686
4dqh 017Gag-Pol polyprotein / 0.686
3d20 017Gag-Pol polyprotein 3.4.23.16 0.684
3bvb 017Gag-Pol polyprotein 3.4.23.16 0.682
3o9c K20Pol polyprotein / 0.682
3jvy 017Gag-Pol polyprotein 3.4.23.16 0.681
4dqf 017Gag-Pol polyprotein / 0.681
2hc0 AB2Protease / 0.676
3dk1 G05Gag-Pol polyprotein 3.4.23.16 0.676
3oxx DR7Gag-Pol polyprotein 3.4.23.16 0.674
1qbs DMPGag-Pol polyprotein 3.4.23.16 0.671
4dqe 017Gag-Pol polyprotein / 0.671
4kb9 G79Protease / 0.671
3oxv 478Gag-Pol polyprotein 3.4.23.16 0.670
4j54 G52Gag-Pol polyprotein 3.4.23.16 0.669
1d4j MSCGag-Pol polyprotein 3.4.23.16 0.668
3jw2 017Gag-Pol polyprotein 3.4.23.16 0.666
3nu4 478Gag-Pol polyprotein 3.4.23.16 0.666
3sac AF8Protease / 0.665
4hdb G52Gag-Pol polyprotein 3.4.23.16 0.665
1bv9 XV6Gag-Pol polyprotein 3.4.23.16 0.664
3gi6 D78Gag-Pol polyprotein / 0.663
3mws 017Pol protein / 0.661
3nu3 478Gag-Pol polyprotein 3.4.23.16 0.659
3nu6 478Gag-Pol polyprotein 3.4.23.16 0.659
1pro A88Gag-Pol polyprotein / 0.658
3nu9 478Gag-Pol polyprotein 3.4.23.16 0.657
3o9e A60Pol polyprotein / 0.656
3st5 G89Gag-Pol polyprotein 3.4.23.16 0.656
3ucb 017Gag-Pol polyprotein / 0.656
2f81 017Gag-Pol polyprotein 3.4.23.16 0.655
3ekv 478Gag-Pol polyprotein 3.4.23.16 0.654
1d4i BEGGag-Pol polyprotein 3.4.23.16 0.652
2qd8 065Gag-Pol polyprotein 3.4.23.16 0.652
2r3t G4GGag-Pol polyprotein 3.4.23.16 0.652
4q1y 017Gag-Pol polyprotein 3.4.23.16 0.652
1xpc AITEstrogen receptor / 0.651
2b60 RITPol polyprotein / 0.651
2avm 2NCGag-Pol polyprotein 3.4.23.16 0.650
2f8g 017Gag-Pol polyprotein 3.4.23.16 0.650
3nuo 478Gag-Pol polyprotein 3.4.23.16 0.650
3qaa G04Gag-Pol polyprotein 3.4.23.16 0.650
4rvj 478Protease / 0.650