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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
2v3h I25 Prothrombin 3.4.21.5

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
2v3h I25Prothrombin 3.4.21.5 0.996
2zhf 49UProthrombin 3.4.21.5 0.828
2ziq 26UProthrombin 3.4.21.5 0.821
2zg0 50UProthrombin 3.4.21.5 0.810
2zhq 27UProthrombin 3.4.21.5 0.810
2zfq 45UProthrombin 3.4.21.5 0.804
3biv 11UProthrombin 3.4.21.5 0.804
1gj4 132Prothrombin 3.4.21.5 0.792
2zda 32UProthrombin 3.4.21.5 0.791
2zgx 29UProthrombin 3.4.21.5 0.790
2znk 31UProthrombin 3.4.21.5 0.788
2zhe 13UProthrombin 3.4.21.5 0.782
1ypl RA8Prothrombin 3.4.21.5 0.778
2zfr 46UProthrombin 3.4.21.5 0.776
4ban M6SProthrombin 3.4.21.5 0.771
4bao MVFProthrombin 3.4.21.5 0.771
4bak M67Prothrombin 3.4.21.5 0.769
2zi2 24UProthrombin 3.4.21.5 0.767
1ypm RA4Prothrombin 3.4.21.5 0.757
1k22 MELProthrombin 3.4.21.5 0.753
1c5n ESIProthrombin 3.4.21.5 0.743
4ayy 9MXProthrombin 3.4.21.5 0.743
4baq M4ZProthrombin 3.4.21.5 0.739
3biu 10UProthrombin 3.4.21.5 0.727
1gj5 130Prothrombin 3.4.21.5 0.720
3hat GLY_VAL_ARG_RNGProthrombin 3.4.21.5 0.718
2zhw 12UProthrombin 3.4.21.5 0.715
2bok 784Coagulation factor X 3.4.21.6 0.707
2cf9 348Prothrombin 3.4.21.5 0.706
4ax9 N5NProthrombin 3.4.21.5 0.699
1vja 7INUrokinase-type plasminogen activator 3.4.21.73 0.696
7kme ACE_0BN_CHG_PRRProthrombin 3.4.21.5 0.695
1owi 426Urokinase-type plasminogen activator 3.4.21.73 0.693
1c4v IH2Prothrombin 3.4.21.5 0.691
1o5g CR9Prothrombin 3.4.21.5 0.690
1ae8 AZLProthrombin 3.4.21.5 0.685
4az2 9MUProthrombin 3.4.21.5 0.683
1vzq SHYProthrombin 3.4.21.5 0.679
2cf8 ESHProthrombin 3.4.21.5 0.678
2v3o I26Prothrombin 3.4.21.5 0.674
1ypg UIRProthrombin 3.4.21.5 0.672
2anm CDOProthrombin 3.4.21.5 0.667
4e7r 0NWProthrombin 3.4.21.5 0.663
1lpk CBBCoagulation factor X 3.4.21.6 0.662
4e5i 0N9Polymerase acidic protein / 0.660
2uuj 896Prothrombin 3.4.21.5 0.656
2c4f GILCoagulation factor VII 3.4.21.21 0.654
1riw OSCProthrombin 3.4.21.5 0.651
1c1w BAHProthrombin 3.4.21.5 0.650
1lqd CMICoagulation factor X 3.4.21.6 0.650