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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
4bah MEL Prothrombin 3.4.21.5

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
4bah MELProthrombin 3.4.21.5 1.151
4ban M6SProthrombin 3.4.21.5 1.143
4bak M67Prothrombin 3.4.21.5 1.141
1k22 MELProthrombin 3.4.21.5 1.127
4bao MVFProthrombin 3.4.21.5 1.121
4baq M4ZProthrombin 3.4.21.5 1.081
4bam MM9Prothrombin 3.4.21.5 1.033
2znk 31UProthrombin 3.4.21.5 0.972
2zhq 27UProthrombin 3.4.21.5 0.918
2zi2 24UProthrombin 3.4.21.5 0.908
2zg0 50UProthrombin 3.4.21.5 0.906
2zfq 45UProthrombin 3.4.21.5 0.887
2anm CDOProthrombin 3.4.21.5 0.881
2zhf 49UProthrombin 3.4.21.5 0.881
2ziq 26UProthrombin 3.4.21.5 0.864
3utu 1TSProthrombin 3.4.21.5 0.864
2a2x NA9Prothrombin 3.4.21.5 0.845
2zfr 46UProthrombin 3.4.21.5 0.831
2bdy UNBProthrombin 3.4.21.5 0.818
2zhe 13UProthrombin 3.4.21.5 0.816
1ypm RA4Prothrombin 3.4.21.5 0.813
1k21 IGNProthrombin 3.4.21.5 0.808
1nt1 T76Prothrombin 3.4.21.5 0.806
1ypl RA8Prothrombin 3.4.21.5 0.805
3biv 11UProthrombin 3.4.21.5 0.798
1lpk CBBCoagulation factor X 3.4.21.6 0.787
2zda 32UProthrombin 3.4.21.5 0.787
1ta6 177Prothrombin 3.4.21.5 0.786
1nzq 162Prothrombin 3.4.21.5 0.785
1ypk CCRProthrombin 3.4.21.5 0.785
3hat GLY_VAL_ARG_RNGProthrombin 3.4.21.5 0.782
1riw OSCProthrombin 3.4.21.5 0.779
1o0d 163Prothrombin 3.4.21.5 0.777
2zhw 12UProthrombin 3.4.21.5 0.772
1ype UIPProthrombin 3.4.21.5 0.771
2v3o I26Prothrombin 3.4.21.5 0.771
2cf8 ESHProthrombin 3.4.21.5 0.765
1wtg 3BPCoagulation factor VII 3.4.21.21 0.761
4ayy 9MXProthrombin 3.4.21.5 0.758
3biu 10UProthrombin 3.4.21.5 0.757
1c4v IH2Prothrombin 3.4.21.5 0.756
1wqv PSMCoagulation factor VII 3.4.21.21 0.754
2zf0 51UProthrombin 3.4.21.5 0.746
2zdv 37UProthrombin 3.4.21.5 0.744
2zgx 29UProthrombin 3.4.21.5 0.743
3v0x ANHCationic trypsin 3.4.21.4 0.743
1ypj UIBProthrombin 3.4.21.5 0.742
2cn0 F25Prothrombin 3.4.21.5 0.742
2gde SN3Prothrombin 3.4.21.5 0.738
3qwc 98PProthrombin 3.4.21.5 0.736
2zff 53UProthrombin 3.4.21.5 0.732
1c5n ESIProthrombin 3.4.21.5 0.729
1ghv 120Prothrombin 3.4.21.5 0.729
2c4f GILCoagulation factor VII 3.4.21.21 0.727
1mue CDDProthrombin 3.4.21.5 0.726
1c4u IH1Prothrombin 3.4.21.5 0.725
1nm6 L86Prothrombin 3.4.21.5 0.720
3dhk 23UProthrombin 3.4.21.5 0.720
3p17 99PProthrombin 3.4.21.5 0.720
1wv7 5PICoagulation factor VII 3.4.21.21 0.718
1ae8 AZLProthrombin 3.4.21.5 0.717
1ta2 176Prothrombin 3.4.21.5 0.714
5cmx 0G6Prothrombin 3.4.21.5 0.714
1zsk 421Coagulation factor XI 3.4.21.27 0.713
2cf9 348Prothrombin 3.4.21.5 0.713
1f92 UKPUrokinase-type plasminogen activator 3.4.21.73 0.711
2zc9 22UProthrombin 3.4.21.5 0.709
3dux 64UProthrombin 3.4.21.5 0.707
1sl3 170Prothrombin 3.4.21.5 0.705
2bok 784Coagulation factor X 3.4.21.6 0.704
1uvs I11Prothrombin 3.4.21.5 0.701
3c1k T15Prothrombin 3.4.21.5 0.701
1mu6 CDAProthrombin 3.4.21.5 0.698
1mu8 CDBProthrombin 3.4.21.5 0.698
1vja 7INUrokinase-type plasminogen activator 3.4.21.73 0.693
3c27 DKKProthrombin 3.4.21.5 0.692
3qtv 06PProthrombin 3.4.21.5 0.692
1d4p BPPProthrombin 3.4.21.5 0.690
3qto 10PProthrombin 3.4.21.5 0.689
1lqd CMICoagulation factor X 3.4.21.6 0.687
2r2m I50Prothrombin 3.4.21.5 0.685
2zp0 PI0Coagulation factor VII 3.4.21.21 0.685
2zfp 19UProthrombin 3.4.21.5 0.684
1z71 L17Prothrombin 3.4.21.5 0.679
1afe ALZProthrombin 3.4.21.5 0.678
1ypg UIRProthrombin 3.4.21.5 0.677
4ayv 9MQProthrombin 3.4.21.5 0.674
1xm1 GAHProthrombin 3.4.21.5 0.672
1t4u 81AProthrombin 3.4.21.5 0.670
3eq0 2TSProthrombin 3.4.21.5 0.667
4fuj 1U9Urokinase-type plasminogen activator 3.4.21.73 0.663
1zrb 062Prothrombin 3.4.21.5 0.658
2y82 930Coagulation factor X 3.4.21.6 0.658
1ny2 ARG_PRO_PRO_GLYProthrombin 3.4.21.5 0.657
1c1u BAIProthrombin 3.4.21.5 0.654