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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
1ype UIP Prothrombin 3.4.21.5

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
1ype UIPProthrombin 3.4.21.5 1.122
1ypj UIBProthrombin 3.4.21.5 1.000
2cf8 ESHProthrombin 3.4.21.5 0.978
1ypg UIRProthrombin 3.4.21.5 0.936
2cf9 348Prothrombin 3.4.21.5 0.926
2cn0 F25Prothrombin 3.4.21.5 0.910
1vzq SHYProthrombin 3.4.21.5 0.890
1oyt FSNProthrombin 3.4.21.5 0.883
4ax9 N5NProthrombin 3.4.21.5 0.821
1ypk CCRProthrombin 3.4.21.5 0.816
4bao MVFProthrombin 3.4.21.5 0.801
4bak M67Prothrombin 3.4.21.5 0.792
2zi2 24UProthrombin 3.4.21.5 0.787
2zhq 27UProthrombin 3.4.21.5 0.782
2zg0 50UProthrombin 3.4.21.5 0.781
4bam MM9Prothrombin 3.4.21.5 0.778
1ypm RA4Prothrombin 3.4.21.5 0.776
2zda 32UProthrombin 3.4.21.5 0.774
3plp BBACationic trypsin 3.4.21.4 0.772
4bah MELProthrombin 3.4.21.5 0.771
1kts C24Prothrombin 3.4.21.5 0.768
1k22 MELProthrombin 3.4.21.5 0.765
4ban M6SProthrombin 3.4.21.5 0.765
2ziq 26UProthrombin 3.4.21.5 0.762
2gde SN3Prothrombin 3.4.21.5 0.761
2v3o I26Prothrombin 3.4.21.5 0.761
2zfq 45UProthrombin 3.4.21.5 0.757
4az2 9MUProthrombin 3.4.21.5 0.754
2zhf 49UProthrombin 3.4.21.5 0.749
2znk 31UProthrombin 3.4.21.5 0.748
2bok 784Coagulation factor X 3.4.21.6 0.747
2zgx 29UProthrombin 3.4.21.5 0.747
4e7r 0NWProthrombin 3.4.21.5 0.747
2zfr 46UProthrombin 3.4.21.5 0.746
4baq M4ZProthrombin 3.4.21.5 0.746
1ae8 AZLProthrombin 3.4.21.5 0.741
1k21 IGNProthrombin 3.4.21.5 0.741
3utu 1TSProthrombin 3.4.21.5 0.741
4ayy 9MXProthrombin 3.4.21.5 0.741
1lpk CBBCoagulation factor X 3.4.21.6 0.738
5cmx 0G6Prothrombin 3.4.21.5 0.736
1nzq 162Prothrombin 3.4.21.5 0.721
3biv 11UProthrombin 3.4.21.5 0.721
1c4u IH1Prothrombin 3.4.21.5 0.713
1d4p BPPProthrombin 3.4.21.5 0.709
7kme ACE_0BN_CHG_PRRProthrombin 3.4.21.5 0.708
3biu 10UProthrombin 3.4.21.5 0.704
2anm CDOProthrombin 3.4.21.5 0.702
4fue 7UPUrokinase-type plasminogen activator 3.4.21.73 0.696
1gj4 132Prothrombin 3.4.21.5 0.695
1o0d 163Prothrombin 3.4.21.5 0.694
2bdy UNBProthrombin 3.4.21.5 0.692
1f92 UKPUrokinase-type plasminogen activator 3.4.21.73 0.689
3hat GLY_VAL_ARG_RNGProthrombin 3.4.21.5 0.686
2zp0 PI0Coagulation factor VII 3.4.21.21 0.685
1z71 L17Prothrombin 3.4.21.5 0.683
1mu8 CDBProthrombin 3.4.21.5 0.680
1sqt UI3Urokinase-type plasminogen activator 3.4.21.73 0.678
1uvs I11Prothrombin 3.4.21.5 0.677
2zhe 13UProthrombin 3.4.21.5 0.675
1wtg 3BPCoagulation factor VII 3.4.21.21 0.673
1sl3 170Prothrombin 3.4.21.5 0.671
1ta6 177Prothrombin 3.4.21.5 0.668
4joo 1M4Beta-secretase 1 3.4.23.46 0.661
4jpe 1M7Beta-secretase 1 3.4.23.46 0.660
1mu6 CDAProthrombin 3.4.21.5 0.659
1c1u BAIProthrombin 3.4.21.5 0.658
1wqv PSMCoagulation factor VII 3.4.21.21 0.657
1mue CDDProthrombin 3.4.21.5 0.656
1nt1 T76Prothrombin 3.4.21.5 0.656
1nm6 L86Prothrombin 3.4.21.5 0.654
2a2x NA9Prothrombin 3.4.21.5 0.654
2pks G44Prothrombin 3.4.21.5 0.652
4ayv 9MQProthrombin 3.4.21.5 0.652
3dux 64UProthrombin 3.4.21.5 0.651