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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
4fjl DGT DNA-directed DNA polymerase

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
4fjl DGTDNA-directed DNA polymerase / 1.111
4fjj TTPDNA-directed DNA polymerase / 1.105
4fk4 DGTDNA-directed DNA polymerase / 1.091
4fj5 DTPDNA-directed DNA polymerase / 1.086
4fjm DCPDNA-directed DNA polymerase / 1.084
4fjh DGTDNA-directed DNA polymerase / 1.082
4m42 ATPDNA-directed DNA polymerase / 1.076
4dtj TTPDNA-directed DNA polymerase / 1.071
3ne6 DCPDNA-directed DNA polymerase / 1.060
4dtp DGTDNA-directed DNA polymerase / 1.058
4m3x ATPDNA-directed DNA polymerase / 1.054
4m3t ATPDNA-directed DNA polymerase / 1.036
4dtx TTPDNA-directed DNA polymerase / 1.032
3sup DCPDNA-directed DNA polymerase / 1.030
3lzj CTPDNA-directed DNA polymerase / 1.025
4khy TTPDNA-directed DNA polymerase / 1.022
4ptf DCPDNA polymerase epsilon catalytic subunit A 2.7.7.7 0.948
4dto DCPDNA-directed DNA polymerase / 0.881
4dtm DCPDNA-directed DNA polymerase / 0.846
3g6x DGTDNA polymerase iota 2.7.7.7 0.819
4dfk 0L5DNA polymerase I, thermostable 2.7.7.7 0.810
3q23 G2PVirion DNA-directed RNA polymerase / 0.762
4df4 0L3DNA polymerase I, thermostable 2.7.7.7 0.761
4df8 0L4DNA polymerase I, thermostable 2.7.7.7 0.755
3au2 DGTDNA polymerase beta family (X family) / 0.743
4rwn APC2'-5'-oligoadenylate synthase 1 2.7.7.84 0.742
1qsy DDSDNA polymerase I, thermostable 2.7.7.7 0.738
1cjv DADAdenylate cyclase type 2 / 0.719
1cjv DADAdenylate cyclase type 5 / 0.719
1qtm TTPDNA polymerase I, thermostable 2.7.7.7 0.704
4xj4 3ATCyclic GMP-AMP synthase / 0.693
4u03 GTPCyclic GMP-AMP synthase / 0.688
1r8c UTPCCA-adding enzyme 2.7.7.72 0.685
1r89 CTPCCA-adding enzyme 2.7.7.72 0.683
4k97 ATPCyclic GMP-AMP synthase / 0.678
4xj3 GTPCyclic GMP-AMP synthase / 0.678
3hiy UTPUncharacterized protein / 0.673
2b51 UTPRNA editing complex protein MP57 / 0.669
2jlr ANPGenome polyprotein 3.4.21.91 0.669
5a2w AGSMitochondrial poly(A) polymerase / 0.669
3myk ANPMyosin-2 heavy chain / 0.664
3w2w ATPCRISPR system Cmr subunit Cmr2 / 0.664
4qnr ATPPsp operon transcriptional activator / 0.657
2q66 ATPPoly(A) polymerase 2.7.7.19 0.655
3fbc TYDNucleoside diphosphate kinase 2.7.4.6 0.653
4qm6 GTPMetallophosphoesterase / 0.653
2py7 ATPPhosphoenolpyruvate carboxykinase (ATP) / 0.652
4kgk GTPUncharacterized protein / 0.652
3g8c ADPBiotin carboxylase 6.3.4.14 0.651
4fvq ATPTyrosine-protein kinase JAK2 / 0.651
3m0e ATPTranscriptional regulator (NtrC family) / 0.650