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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
1qsy DDS DNA polymerase I, thermostable 2.7.7.7

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
1qsy DDSDNA polymerase I, thermostable 2.7.7.7 1.103
1qtm TTPDNA polymerase I, thermostable 2.7.7.7 0.992
4df8 0L4DNA polymerase I, thermostable 2.7.7.7 0.929
4dfk 0L5DNA polymerase I, thermostable 2.7.7.7 0.924
4df4 0L3DNA polymerase I, thermostable 2.7.7.7 0.884
4m3x ATPDNA-directed DNA polymerase / 0.807
4dtj TTPDNA-directed DNA polymerase / 0.800
1qss DG3DNA polymerase I, thermostable 2.7.7.7 0.786
4dtx TTPDNA-directed DNA polymerase / 0.783
4khy TTPDNA-directed DNA polymerase / 0.771
3t3f N5PDNA polymerase I, thermostable 2.7.7.7 0.767
3lzj CTPDNA-directed DNA polymerase / 0.763
4fk4 DGTDNA-directed DNA polymerase / 0.758
4dtp DGTDNA-directed DNA polymerase / 0.754
4fj5 DTPDNA-directed DNA polymerase / 0.754
4m42 ATPDNA-directed DNA polymerase / 0.753
4ptf DCPDNA polymerase epsilon catalytic subunit A 2.7.7.7 0.744
4fjl DGTDNA-directed DNA polymerase / 0.738
3g6x DGTDNA polymerase iota 2.7.7.7 0.737
3sup DCPDNA-directed DNA polymerase / 0.735
4fjj TTPDNA-directed DNA polymerase / 0.730
4fjm DCPDNA-directed DNA polymerase / 0.727
3ne6 DCPDNA-directed DNA polymerase / 0.726
4fjh DGTDNA-directed DNA polymerase / 0.711
4xj4 3ATCyclic GMP-AMP synthase / 0.699
4dto DCPDNA-directed DNA polymerase / 0.697
2ikf UTPPoly(A) polymerase, putative / 0.685
2b51 UTPRNA editing complex protein MP57 / 0.680
4dtm DCPDNA-directed DNA polymerase / 0.668
4m69 ANPReceptor-interacting serine/threonine-protein kinase 3 2.7.11.1 0.666
3au2 DGTDNA polymerase beta family (X family) / 0.663
1cjv DADAdenylate cyclase type 2 / 0.660
1cjv DADAdenylate cyclase type 5 / 0.660
3hiy UTPUncharacterized protein / 0.660
3wbz ATPtRNA(His) guanylyltransferase {ECO:0000256|PIRNR:PIRNR028980} / 0.660
1nhh ANPDNA mismatch repair protein MutL / 0.650
2q66 ATPPoly(A) polymerase 2.7.7.19 0.650
2rge GNPGTPase HRas / 0.650