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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
1ypj UIB Prothrombin 3.4.21.5

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
1ypj UIBProthrombin 3.4.21.5 1.062
1ype UIPProthrombin 3.4.21.5 1.000
1ypg UIRProthrombin 3.4.21.5 0.902
2cf8 ESHProthrombin 3.4.21.5 0.883
1vzq SHYProthrombin 3.4.21.5 0.880
2cf9 348Prothrombin 3.4.21.5 0.865
1oyt FSNProthrombin 3.4.21.5 0.824
1ypk CCRProthrombin 3.4.21.5 0.780
4az2 9MUProthrombin 3.4.21.5 0.775
1ypl RA8Prothrombin 3.4.21.5 0.774
3plp BBACationic trypsin 3.4.21.4 0.770
4ax9 N5NProthrombin 3.4.21.5 0.767
2zi2 24UProthrombin 3.4.21.5 0.763
1ypm RA4Prothrombin 3.4.21.5 0.762
4ayy 9MXProthrombin 3.4.21.5 0.758
2cn0 F25Prothrombin 3.4.21.5 0.757
4bam MM9Prothrombin 3.4.21.5 0.755
4bao MVFProthrombin 3.4.21.5 0.755
2zhq 27UProthrombin 3.4.21.5 0.748
2znk 31UProthrombin 3.4.21.5 0.745
4ayv 9MQProthrombin 3.4.21.5 0.745
4bah MELProthrombin 3.4.21.5 0.742
4ban M6SProthrombin 3.4.21.5 0.740
3biv 11UProthrombin 3.4.21.5 0.739
2bok 784Coagulation factor X 3.4.21.6 0.731
2zda 32UProthrombin 3.4.21.5 0.731
1lpk CBBCoagulation factor X 3.4.21.6 0.729
2zfr 46UProthrombin 3.4.21.5 0.724
4bak M67Prothrombin 3.4.21.5 0.723
2zg0 50UProthrombin 3.4.21.5 0.719
2zhf 49UProthrombin 3.4.21.5 0.718
1k21 IGNProthrombin 3.4.21.5 0.715
1ae8 AZLProthrombin 3.4.21.5 0.712
1nzq 162Prothrombin 3.4.21.5 0.711
1riw OSCProthrombin 3.4.21.5 0.711
4baq M4ZProthrombin 3.4.21.5 0.711
2ziq 26UProthrombin 3.4.21.5 0.710
3utu 1TSProthrombin 3.4.21.5 0.706
2zgx 29UProthrombin 3.4.21.5 0.702
7kme ACE_0BN_CHG_PRRProthrombin 3.4.21.5 0.702
2zfq 45UProthrombin 3.4.21.5 0.699
2a2x NA9Prothrombin 3.4.21.5 0.698
5cmx 0G6Prothrombin 3.4.21.5 0.698
1c4u IH1Prothrombin 3.4.21.5 0.695
1k22 MELProthrombin 3.4.21.5 0.695
4e7r 0NWProthrombin 3.4.21.5 0.695
2anm CDOProthrombin 3.4.21.5 0.691
1uvs I11Prothrombin 3.4.21.5 0.690
3biu 10UProthrombin 3.4.21.5 0.679
1z71 L17Prothrombin 3.4.21.5 0.669
3hat GLY_VAL_ARG_RNGProthrombin 3.4.21.5 0.669
2v3o I26Prothrombin 3.4.21.5 0.664
1c4v IH2Prothrombin 3.4.21.5 0.660
2zp0 PI0Coagulation factor VII 3.4.21.21 0.660
1wqv PSMCoagulation factor VII 3.4.21.21 0.658
2bdy UNBProthrombin 3.4.21.5 0.656
1c1u BAIProthrombin 3.4.21.5 0.654
1ny2 ARG_PRO_PRO_GLYProthrombin 3.4.21.5 0.654
1sl3 170Prothrombin 3.4.21.5 0.652