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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
4dtj TTP DNA-directed DNA polymerase

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
4dtj TTPDNA-directed DNA polymerase / 1.129
3ne6 DCPDNA-directed DNA polymerase / 1.107
4fj5 DTPDNA-directed DNA polymerase / 1.102
4fjh DGTDNA-directed DNA polymerase / 1.099
3sup DCPDNA-directed DNA polymerase / 1.095
4fk4 DGTDNA-directed DNA polymerase / 1.088
4fjj TTPDNA-directed DNA polymerase / 1.082
3lzj CTPDNA-directed DNA polymerase / 1.078
4dtp DGTDNA-directed DNA polymerase / 1.078
4fjl DGTDNA-directed DNA polymerase / 1.071
4dtx TTPDNA-directed DNA polymerase / 1.069
4fjm DCPDNA-directed DNA polymerase / 1.055
4m3t ATPDNA-directed DNA polymerase / 1.046
4m3x ATPDNA-directed DNA polymerase / 1.036
4m42 ATPDNA-directed DNA polymerase / 1.018
4khy TTPDNA-directed DNA polymerase / 0.987
4dto DCPDNA-directed DNA polymerase / 0.961
4ptf DCPDNA polymerase epsilon catalytic subunit A 2.7.7.7 0.920
4dtm DCPDNA-directed DNA polymerase / 0.918
4dfk 0L5DNA polymerase I, thermostable 2.7.7.7 0.869
3g6x DGTDNA polymerase iota 2.7.7.7 0.856
4df8 0L4DNA polymerase I, thermostable 2.7.7.7 0.840
1qsy DDSDNA polymerase I, thermostable 2.7.7.7 0.800
4df4 0L3DNA polymerase I, thermostable 2.7.7.7 0.781
3au2 DGTDNA polymerase beta family (X family) / 0.759
3q23 G2PVirion DNA-directed RNA polymerase / 0.758
4rwn APC2'-5'-oligoadenylate synthase 1 2.7.7.84 0.746
1qtm TTPDNA polymerase I, thermostable 2.7.7.7 0.732
3t3f N5PDNA polymerase I, thermostable 2.7.7.7 0.727
4xj4 3ATCyclic GMP-AMP synthase / 0.726
2q66 ATPPoly(A) polymerase 2.7.7.19 0.724
1r89 CTPCCA-adding enzyme 2.7.7.72 0.714
3w2w ATPCRISPR system Cmr subunit Cmr2 / 0.709
1r8b ATPCCA-adding enzyme 2.7.7.72 0.702
1r8c UTPCCA-adding enzyme 2.7.7.72 0.699
5a2w AGSMitochondrial poly(A) polymerase / 0.692
4k97 ATPCyclic GMP-AMP synthase / 0.688
3ftq GNPSeptin-2 / 0.681
2jlr ANPGenome polyprotein 3.4.21.91 0.669
2olr ATPPhosphoenolpyruvate carboxykinase (ATP) / 0.668
5c03 AGSNon-receptor tyrosine-protein kinase TYK2 2.7.10.2 0.664
1fcb FMNCytochrome b2, mitochondrial 1.1.2.3 0.663
2vp0 TTPDeoxynucleoside kinase / 0.662
1xef ATPAlpha-hemolysin translocation ATP-binding protein HlyB / 0.657
3vhx GTPADP-ribosylation factor 6 / 0.655
2ikf UTPPoly(A) polymerase, putative / 0.654
3myk ANPMyosin-2 heavy chain / 0.653
3r6c 17NAnthranilate phosphoribosyltransferase / 0.653