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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
1ghv 120 Prothrombin 3.4.21.5

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
1ghv 120Prothrombin 3.4.21.5 0.885
2zfq 45UProthrombin 3.4.21.5 0.752
3biv 11UProthrombin 3.4.21.5 0.751
2znk 31UProthrombin 3.4.21.5 0.749
1c1u BAIProthrombin 3.4.21.5 0.744
4baq M4ZProthrombin 3.4.21.5 0.742
2zhe 13UProthrombin 3.4.21.5 0.737
1o2g 696Prothrombin 3.4.21.5 0.736
1c1w BAHProthrombin 3.4.21.5 0.735
3v0x ANHCationic trypsin 3.4.21.4 0.730
1d4p BPPProthrombin 3.4.21.5 0.729
1k22 MELProthrombin 3.4.21.5 0.729
4bah MELProthrombin 3.4.21.5 0.729
2cf8 ESHProthrombin 3.4.21.5 0.728
2cf9 348Prothrombin 3.4.21.5 0.728
4bam MM9Prothrombin 3.4.21.5 0.728
4bao MVFProthrombin 3.4.21.5 0.728
4ban M6SProthrombin 3.4.21.5 0.727
1o5g CR9Prothrombin 3.4.21.5 0.726
4bak M67Prothrombin 3.4.21.5 0.725
2zhw 12UProthrombin 3.4.21.5 0.724
1vja 7INUrokinase-type plasminogen activator 3.4.21.73 0.722
1gj4 132Prothrombin 3.4.21.5 0.718
1owe 675Urokinase-type plasminogen activator 3.4.21.73 0.718
1vzq SHYProthrombin 3.4.21.5 0.718
3biu 10UProthrombin 3.4.21.5 0.718
2bok 784Coagulation factor X 3.4.21.6 0.716
2zda 32UProthrombin 3.4.21.5 0.715
4fui UI3Urokinase-type plasminogen activator 3.4.21.73 0.713
2c4f GILCoagulation factor VII 3.4.21.21 0.712
2zfr 46UProthrombin 3.4.21.5 0.710
4fuj 1U9Urokinase-type plasminogen activator 3.4.21.73 0.710
4fub 4UPUrokinase-type plasminogen activator 3.4.21.73 0.709
4ayv 9MQProthrombin 3.4.21.5 0.708
4fud 6UPUrokinase-type plasminogen activator 3.4.21.73 0.707
4ayy 9MXProthrombin 3.4.21.5 0.706
2zgx 29UProthrombin 3.4.21.5 0.705
1sqt UI3Urokinase-type plasminogen activator 3.4.21.73 0.704
1oyt FSNProthrombin 3.4.21.5 0.703
1riw OSCProthrombin 3.4.21.5 0.703
2gde SN3Prothrombin 3.4.21.5 0.698
4fuf 8UPUrokinase-type plasminogen activator 3.4.21.73 0.697
1gj5 130Prothrombin 3.4.21.5 0.696
1owi 426Urokinase-type plasminogen activator 3.4.21.73 0.696
1u6q 745Urokinase-type plasminogen activator 3.4.21.73 0.696
2cn0 F25Prothrombin 3.4.21.5 0.696
4fue 7UPUrokinase-type plasminogen activator 3.4.21.73 0.695
1ypm RA4Prothrombin 3.4.21.5 0.690
1owd 497Urokinase-type plasminogen activator 3.4.21.73 0.689
1wtg 3BPCoagulation factor VII 3.4.21.21 0.688
3plp BBACationic trypsin 3.4.21.4 0.684
1wv7 5PICoagulation factor VII 3.4.21.21 0.680
7kme ACE_0BN_CHG_PRRProthrombin 3.4.21.5 0.679
1vaf ARRNitric oxide synthase, inducible 1.14.13.39 0.672
1ny2 ARG_PRO_PRO_GLYProthrombin 3.4.21.5 0.668
1lqd CMICoagulation factor X 3.4.21.6 0.667
1owk 303Urokinase-type plasminogen activator 3.4.21.73 0.667
4e7r 0NWProthrombin 3.4.21.5 0.661
1ypg UIRProthrombin 3.4.21.5 0.660
4joo 1M4Beta-secretase 1 3.4.23.46 0.660