Logo scPDB

sc-PDB

An Annotated Database of Druggable Binding Sites from the Protein DataBank

Logo CNRS Logo Unistra
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
4m3x ATP DNA-directed DNA polymerase

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
4m3x ATPDNA-directed DNA polymerase / 1.096
4fjj TTPDNA-directed DNA polymerase / 1.086
4dtx TTPDNA-directed DNA polymerase / 1.078
4m42 ATPDNA-directed DNA polymerase / 1.070
4fk4 DGTDNA-directed DNA polymerase / 1.069
4m3t ATPDNA-directed DNA polymerase / 1.069
4fjm DCPDNA-directed DNA polymerase / 1.066
4fj5 DTPDNA-directed DNA polymerase / 1.064
4fjh DGTDNA-directed DNA polymerase / 1.062
4fjl DGTDNA-directed DNA polymerase / 1.054
4dtj TTPDNA-directed DNA polymerase / 1.036
3ne6 DCPDNA-directed DNA polymerase / 1.022
3lzj CTPDNA-directed DNA polymerase / 1.014
4dtp DGTDNA-directed DNA polymerase / 0.998
3sup DCPDNA-directed DNA polymerase / 0.967
4khy TTPDNA-directed DNA polymerase / 0.945
4dto DCPDNA-directed DNA polymerase / 0.864
4dtm DCPDNA-directed DNA polymerase / 0.851
3g6x DGTDNA polymerase iota 2.7.7.7 0.825
4ptf DCPDNA polymerase epsilon catalytic subunit A 2.7.7.7 0.808
1qsy DDSDNA polymerase I, thermostable 2.7.7.7 0.807
4dfk 0L5DNA polymerase I, thermostable 2.7.7.7 0.801
4df8 0L4DNA polymerase I, thermostable 2.7.7.7 0.798
3au2 DGTDNA polymerase beta family (X family) / 0.773
3q23 G2PVirion DNA-directed RNA polymerase / 0.736
4df4 0L3DNA polymerase I, thermostable 2.7.7.7 0.731
1cjv DADAdenylate cyclase type 2 / 0.717
1cjv DADAdenylate cyclase type 5 / 0.717
1r8c UTPCCA-adding enzyme 2.7.7.72 0.696
1qtm TTPDNA polymerase I, thermostable 2.7.7.7 0.694
4rwn APC2'-5'-oligoadenylate synthase 1 2.7.7.84 0.694
4xj4 3ATCyclic GMP-AMP synthase / 0.673
5a2w AGSMitochondrial poly(A) polymerase / 0.673
2q66 ATPPoly(A) polymerase 2.7.7.19 0.670
1oe0 TTPDeoxynucleoside kinase / 0.667
5c03 AGSNon-receptor tyrosine-protein kinase TYK2 2.7.10.2 0.665
1r8b ATPCCA-adding enzyme 2.7.7.72 0.663
4u03 GTPCyclic GMP-AMP synthase / 0.662
1zm7 TTPDeoxynucleoside kinase / 0.659
4fvq ATPTyrosine-protein kinase JAK2 / 0.657
4xj3 GTPCyclic GMP-AMP synthase / 0.657
3hiy UTPUncharacterized protein / 0.655
2bc9 GNPGuanylate-binding protein 1 / 0.654
3fbc TYDNucleoside diphosphate kinase 2.7.4.6 0.654
4jsy GTPMetallophosphoesterase / 0.654
4xul GTPUncharacterized protein mg662 / 0.654
4lt6 3ATPoly(A) polymerase gamma 2.7.7.19 0.651