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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
5a2w AGS Mitochondrial poly(A) polymerase

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
5a2w AGSMitochondrial poly(A) polymerase / 0.872
5a30 AGSMitochondrial poly(A) polymerase / 0.757
2q66 ATPPoly(A) polymerase 2.7.7.19 0.740
4fjm DCPDNA-directed DNA polymerase / 0.708
4dtp DGTDNA-directed DNA polymerase / 0.704
4fj5 DTPDNA-directed DNA polymerase / 0.704
4dtj TTPDNA-directed DNA polymerase / 0.692
4fjh DGTDNA-directed DNA polymerase / 0.691
4fjj TTPDNA-directed DNA polymerase / 0.690
4m42 ATPDNA-directed DNA polymerase / 0.689
2b56 UTPRNA editing complex protein MP57 / 0.682
3hiy UTPUncharacterized protein / 0.678
4k97 ATPCyclic GMP-AMP synthase / 0.676
4m3x ATPDNA-directed DNA polymerase / 0.673
3sup DCPDNA-directed DNA polymerase / 0.672
4m3t ATPDNA-directed DNA polymerase / 0.671
4fjl DGTDNA-directed DNA polymerase / 0.669
3g6x DGTDNA polymerase iota 2.7.7.7 0.665
4df4 0L3DNA polymerase I, thermostable 2.7.7.7 0.665
4rwn APC2'-5'-oligoadenylate synthase 1 2.7.7.84 0.665
4dtx TTPDNA-directed DNA polymerase / 0.663
4ptf DCPDNA polymerase epsilon catalytic subunit A 2.7.7.7 0.663
1qtm TTPDNA polymerase I, thermostable 2.7.7.7 0.661
4fk4 DGTDNA-directed DNA polymerase / 0.661
2ikf UTPPoly(A) polymerase, putative / 0.659
3q23 G2PVirion DNA-directed RNA polymerase / 0.659
4dfk 0L5DNA polymerase I, thermostable 2.7.7.7 0.658
4dtm DCPDNA-directed DNA polymerase / 0.658
3lzj CTPDNA-directed DNA polymerase / 0.654
3ne6 DCPDNA-directed DNA polymerase / 0.653
1r8b ATPCCA-adding enzyme 2.7.7.72 0.652