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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
4fjj TTP DNA-directed DNA polymerase

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
4fjj TTPDNA-directed DNA polymerase / 1.161
4fjm DCPDNA-directed DNA polymerase / 1.136
4m42 ATPDNA-directed DNA polymerase / 1.130
3ne6 DCPDNA-directed DNA polymerase / 1.112
4fjh DGTDNA-directed DNA polymerase / 1.112
4fj5 DTPDNA-directed DNA polymerase / 1.110
4fjl DGTDNA-directed DNA polymerase / 1.105
4fk4 DGTDNA-directed DNA polymerase / 1.101
4dtx TTPDNA-directed DNA polymerase / 1.099
4m3x ATPDNA-directed DNA polymerase / 1.086
4dtj TTPDNA-directed DNA polymerase / 1.082
3lzj CTPDNA-directed DNA polymerase / 1.073
4m3t ATPDNA-directed DNA polymerase / 1.068
3sup DCPDNA-directed DNA polymerase / 1.064
4dtp DGTDNA-directed DNA polymerase / 1.058
4khy TTPDNA-directed DNA polymerase / 1.034
4ptf DCPDNA polymerase epsilon catalytic subunit A 2.7.7.7 0.963
4dto DCPDNA-directed DNA polymerase / 0.919
4dtm DCPDNA-directed DNA polymerase / 0.884
3g6x DGTDNA polymerase iota 2.7.7.7 0.818
4dfk 0L5DNA polymerase I, thermostable 2.7.7.7 0.799
4df8 0L4DNA polymerase I, thermostable 2.7.7.7 0.796
4df4 0L3DNA polymerase I, thermostable 2.7.7.7 0.772
3q23 G2PVirion DNA-directed RNA polymerase / 0.762
3au2 DGTDNA polymerase beta family (X family) / 0.758
4rwn APC2'-5'-oligoadenylate synthase 1 2.7.7.84 0.747
1qsy DDSDNA polymerase I, thermostable 2.7.7.7 0.730
1qtm TTPDNA polymerase I, thermostable 2.7.7.7 0.718
1r89 CTPCCA-adding enzyme 2.7.7.72 0.711
4xj4 3ATCyclic GMP-AMP synthase / 0.705
1r8b ATPCCA-adding enzyme 2.7.7.72 0.699
2q66 ATPPoly(A) polymerase 2.7.7.19 0.690
5a2w AGSMitochondrial poly(A) polymerase / 0.690
1r8c UTPCCA-adding enzyme 2.7.7.72 0.685
1cjv DADAdenylate cyclase type 2 / 0.680
1cjv DADAdenylate cyclase type 5 / 0.680
3w2w ATPCRISPR system Cmr subunit Cmr2 / 0.679
4k97 ATPCyclic GMP-AMP synthase / 0.672
1ei1 ANPDNA gyrase subunit B / 0.667
2jlr ANPGenome polyprotein 3.4.21.91 0.666
3ftq GNPSeptin-2 / 0.666
4kgm ATPUncharacterized protein / 0.661
4qm6 GTPMetallophosphoesterase / 0.660
2o4g TMPThree-prime repair exonuclease 1 3.1.11.2 0.656
4qnr ATPPsp operon transcriptional activator / 0.656
3fbc TYDNucleoside diphosphate kinase 2.7.4.6 0.653
3rv4 ADPBiotin carboxylase 6.3.4.14 0.652
2vqd AP2Biotin carboxylase 6.3.4.14 0.651
4fvq ATPTyrosine-protein kinase JAK2 / 0.651