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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
3biu 10U Prothrombin 3.4.21.5

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
3biu 10UProthrombin 3.4.21.5 1.019
2zhe 13UProthrombin 3.4.21.5 0.910
2ziq 26UProthrombin 3.4.21.5 0.883
2zg0 50UProthrombin 3.4.21.5 0.874
2zfq 45UProthrombin 3.4.21.5 0.869
3biv 11UProthrombin 3.4.21.5 0.843
2zhq 27UProthrombin 3.4.21.5 0.841
2znk 31UProthrombin 3.4.21.5 0.837
1ypm RA4Prothrombin 3.4.21.5 0.830
3utu 1TSProthrombin 3.4.21.5 0.806
1ypl RA8Prothrombin 3.4.21.5 0.800
2a2x NA9Prothrombin 3.4.21.5 0.794
4bak M67Prothrombin 3.4.21.5 0.791
2bdy UNBProthrombin 3.4.21.5 0.786
2zfr 46UProthrombin 3.4.21.5 0.783
2anm CDOProthrombin 3.4.21.5 0.780
2gde SN3Prothrombin 3.4.21.5 0.774
4ban M6SProthrombin 3.4.21.5 0.773
4bam MM9Prothrombin 3.4.21.5 0.772
2zhw 12UProthrombin 3.4.21.5 0.765
4baq M4ZProthrombin 3.4.21.5 0.760
4bah MELProthrombin 3.4.21.5 0.757
4bao MVFProthrombin 3.4.21.5 0.754
1riw OSCProthrombin 3.4.21.5 0.752
1wqv PSMCoagulation factor VII 3.4.21.21 0.740
2zgx 29UProthrombin 3.4.21.5 0.739
1ype UIPProthrombin 3.4.21.5 0.737
1ypk CCRProthrombin 3.4.21.5 0.737
1c4v IH2Prothrombin 3.4.21.5 0.734
2v3h I25Prothrombin 3.4.21.5 0.727
1ghv 120Prothrombin 3.4.21.5 0.718
4e7r 0NWProthrombin 3.4.21.5 0.717
1k21 IGNProthrombin 3.4.21.5 0.715
2zhf 49UProthrombin 3.4.21.5 0.715
1vja 7INUrokinase-type plasminogen activator 3.4.21.73 0.713
2cf8 ESHProthrombin 3.4.21.5 0.710
1k22 MELProthrombin 3.4.21.5 0.697
1c4u IH1Prothrombin 3.4.21.5 0.694
1lpk CBBCoagulation factor X 3.4.21.6 0.692
1wv7 5PICoagulation factor VII 3.4.21.21 0.692
4ax9 N5NProthrombin 3.4.21.5 0.688
1c5n ESIProthrombin 3.4.21.5 0.686
1d4p BPPProthrombin 3.4.21.5 0.686
1wtg 3BPCoagulation factor VII 3.4.21.21 0.686
1oyt FSNProthrombin 3.4.21.5 0.685
2zi2 24UProthrombin 3.4.21.5 0.683
2zdv 37UProthrombin 3.4.21.5 0.682
1o0d 163Prothrombin 3.4.21.5 0.681
2cf9 348Prothrombin 3.4.21.5 0.681
2zf0 51UProthrombin 3.4.21.5 0.680
1ypj UIBProthrombin 3.4.21.5 0.679
2zff 53UProthrombin 3.4.21.5 0.676
4az2 9MUProthrombin 3.4.21.5 0.672
2cn0 F25Prothrombin 3.4.21.5 0.670
3dux 64UProthrombin 3.4.21.5 0.670
3hat GLY_VAL_ARG_RNGProthrombin 3.4.21.5 0.669
2c4f GILCoagulation factor VII 3.4.21.21 0.668
1ny2 ARG_PRO_PRO_GLYProthrombin 3.4.21.5 0.665
3eq0 2TSProthrombin 3.4.21.5 0.663
2zgb 21UProthrombin 3.4.21.5 0.662
1t4v 14AProthrombin 3.4.21.5 0.659
3p17 99PProthrombin 3.4.21.5 0.658
4ne0 ZZUHydroxylase / 0.658
1kts C24Prothrombin 3.4.21.5 0.657
1owk 303Urokinase-type plasminogen activator 3.4.21.73 0.657
3f68 91UProthrombin 3.4.21.5 0.656
4ayv 9MQProthrombin 3.4.21.5 0.654
4fub 4UPUrokinase-type plasminogen activator 3.4.21.73 0.654
4fud 6UPUrokinase-type plasminogen activator 3.4.21.73 0.654
3qwc 98PProthrombin 3.4.21.5 0.652
1nzq 162Prothrombin 3.4.21.5 0.651