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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
4baq M4Z Prothrombin 3.4.21.5

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
4baq M4ZProthrombin 3.4.21.5 1.199
4bak M67Prothrombin 3.4.21.5 1.122
4bao MVFProthrombin 3.4.21.5 1.109
4ban M6SProthrombin 3.4.21.5 1.083
4bah MELProthrombin 3.4.21.5 1.081
1k22 MELProthrombin 3.4.21.5 1.061
4bam MM9Prothrombin 3.4.21.5 0.997
2znk 31UProthrombin 3.4.21.5 0.929
2zg0 50UProthrombin 3.4.21.5 0.898
2zhq 27UProthrombin 3.4.21.5 0.882
2zfq 45UProthrombin 3.4.21.5 0.870
2a2x NA9Prothrombin 3.4.21.5 0.869
2zhf 49UProthrombin 3.4.21.5 0.855
2anm CDOProthrombin 3.4.21.5 0.848
1ta6 177Prothrombin 3.4.21.5 0.847
1ypm RA4Prothrombin 3.4.21.5 0.834
3utu 1TSProthrombin 3.4.21.5 0.827
1nzq 162Prothrombin 3.4.21.5 0.818
2zfr 46UProthrombin 3.4.21.5 0.813
2zhw 12UProthrombin 3.4.21.5 0.806
1nt1 T76Prothrombin 3.4.21.5 0.805
4e7r 0NWProthrombin 3.4.21.5 0.802
2bdy UNBProthrombin 3.4.21.5 0.801
1riw OSCProthrombin 3.4.21.5 0.799
3biv 11UProthrombin 3.4.21.5 0.798
2zda 32UProthrombin 3.4.21.5 0.787
1lpk CBBCoagulation factor X 3.4.21.6 0.781
2zi2 24UProthrombin 3.4.21.5 0.776
4ayy 9MXProthrombin 3.4.21.5 0.772
2ziq 26UProthrombin 3.4.21.5 0.770
3v0x ANHCationic trypsin 3.4.21.4 0.770
2zgx 29UProthrombin 3.4.21.5 0.769
3hat GLY_VAL_ARG_RNGProthrombin 3.4.21.5 0.768
2zgb 21UProthrombin 3.4.21.5 0.762
1c4u IH1Prothrombin 3.4.21.5 0.760
3biu 10UProthrombin 3.4.21.5 0.760
1wqv PSMCoagulation factor VII 3.4.21.21 0.759
1ypk CCRProthrombin 3.4.21.5 0.750
1ypl RA8Prothrombin 3.4.21.5 0.749
2cf9 348Prothrombin 3.4.21.5 0.749
1ype UIPProthrombin 3.4.21.5 0.746
1ghv 120Prothrombin 3.4.21.5 0.742
1sqt UI3Urokinase-type plasminogen activator 3.4.21.73 0.742
2cf8 ESHProthrombin 3.4.21.5 0.742
1o0d 163Prothrombin 3.4.21.5 0.741
4ax9 N5NProthrombin 3.4.21.5 0.741
1c4v IH2Prothrombin 3.4.21.5 0.740
2gde SN3Prothrombin 3.4.21.5 0.740
2v3h I25Prothrombin 3.4.21.5 0.739
1c5n ESIProthrombin 3.4.21.5 0.730
1wtg 3BPCoagulation factor VII 3.4.21.21 0.729
1vzq SHYProthrombin 3.4.21.5 0.723
1k21 IGNProthrombin 3.4.21.5 0.719
4fue 7UPUrokinase-type plasminogen activator 3.4.21.73 0.719
1ta2 176Prothrombin 3.4.21.5 0.716
1wv7 5PICoagulation factor VII 3.4.21.21 0.716
3c1k T15Prothrombin 3.4.21.5 0.715
1ypg UIRProthrombin 3.4.21.5 0.714
3p17 99PProthrombin 3.4.21.5 0.712
1ypj UIBProthrombin 3.4.21.5 0.711
2cn0 F25Prothrombin 3.4.21.5 0.711
2zff 53UProthrombin 3.4.21.5 0.711
4az2 9MUProthrombin 3.4.21.5 0.711
1c1u BAIProthrombin 3.4.21.5 0.710
4fuj 1U9Urokinase-type plasminogen activator 3.4.21.73 0.708
4ayv 9MQProthrombin 3.4.21.5 0.704
1lqd CMICoagulation factor X 3.4.21.6 0.703
1ae8 AZLProthrombin 3.4.21.5 0.701
1sb1 165Prothrombin 3.4.21.5 0.701
7kme ACE_0BN_CHG_PRRProthrombin 3.4.21.5 0.701
2zfp 19UProthrombin 3.4.21.5 0.700
1uvs I11Prothrombin 3.4.21.5 0.699
2zp0 PI0Coagulation factor VII 3.4.21.21 0.699
2zf0 51UProthrombin 3.4.21.5 0.697
1owe 675Urokinase-type plasminogen activator 3.4.21.73 0.695
2v3o I26Prothrombin 3.4.21.5 0.695
1owd 497Urokinase-type plasminogen activator 3.4.21.73 0.691
3plp BBACationic trypsin 3.4.21.4 0.691
1owk 303Urokinase-type plasminogen activator 3.4.21.73 0.689
2zhe 13UProthrombin 3.4.21.5 0.687
3qtv 06PProthrombin 3.4.21.5 0.685
1oyt FSNProthrombin 3.4.21.5 0.684
3qto 10PProthrombin 3.4.21.5 0.684
3qwc 98PProthrombin 3.4.21.5 0.683
1d4p BPPProthrombin 3.4.21.5 0.682
1vja 7INUrokinase-type plasminogen activator 3.4.21.73 0.682
3dhk 23UProthrombin 3.4.21.5 0.681
1afe ALZProthrombin 3.4.21.5 0.677
5cmx 0G6Prothrombin 3.4.21.5 0.677
1mue CDDProthrombin 3.4.21.5 0.674
1sl3 170Prothrombin 3.4.21.5 0.674
2zdv 37UProthrombin 3.4.21.5 0.674
3c27 DKKProthrombin 3.4.21.5 0.673
1u6q 745Urokinase-type plasminogen activator 3.4.21.73 0.671
1xm1 GAHProthrombin 3.4.21.5 0.671
1f92 UKPUrokinase-type plasminogen activator 3.4.21.73 0.666
1mu8 CDBProthrombin 3.4.21.5 0.666
1mu6 CDAProthrombin 3.4.21.5 0.665
1t4v 14AProthrombin 3.4.21.5 0.665
1zsk 421Coagulation factor XI 3.4.21.27 0.665
4fub 4UPUrokinase-type plasminogen activator 3.4.21.73 0.664
4fud 6UPUrokinase-type plasminogen activator 3.4.21.73 0.664
3eq0 2TSProthrombin 3.4.21.5 0.662
4joo 1M4Beta-secretase 1 3.4.23.46 0.661
4jpe 1M7Beta-secretase 1 3.4.23.46 0.659
3dux 64UProthrombin 3.4.21.5 0.655
1nm6 L86Prothrombin 3.4.21.5 0.653
1c1w BAHProthrombin 3.4.21.5 0.651