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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
4bao MVF Prothrombin 3.4.21.5

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
4bao MVFProthrombin 3.4.21.5 1.153
4bak M67Prothrombin 3.4.21.5 1.140
4ban M6SProthrombin 3.4.21.5 1.124
4bah MELProthrombin 3.4.21.5 1.121
4bam MM9Prothrombin 3.4.21.5 1.118
4baq M4ZProthrombin 3.4.21.5 1.109
1k22 MELProthrombin 3.4.21.5 1.101
2znk 31UProthrombin 3.4.21.5 0.955
2zfq 45UProthrombin 3.4.21.5 0.905
2zg0 50UProthrombin 3.4.21.5 0.905
2a2x NA9Prothrombin 3.4.21.5 0.903
2zhq 27UProthrombin 3.4.21.5 0.902
2anm CDOProthrombin 3.4.21.5 0.884
1ypm RA4Prothrombin 3.4.21.5 0.867
2ziq 26UProthrombin 3.4.21.5 0.867
2zda 32UProthrombin 3.4.21.5 0.865
3utu 1TSProthrombin 3.4.21.5 0.864
2zhf 49UProthrombin 3.4.21.5 0.862
2zfr 46UProthrombin 3.4.21.5 0.832
2zgx 29UProthrombin 3.4.21.5 0.831
2zi2 24UProthrombin 3.4.21.5 0.830
1riw OSCProthrombin 3.4.21.5 0.825
1ypl RA8Prothrombin 3.4.21.5 0.821
1nt1 T76Prothrombin 3.4.21.5 0.820
1lpk CBBCoagulation factor X 3.4.21.6 0.807
1k21 IGNProthrombin 3.4.21.5 0.803
3biv 11UProthrombin 3.4.21.5 0.803
1ype UIPProthrombin 3.4.21.5 0.801
1nzq 162Prothrombin 3.4.21.5 0.794
2zhw 12UProthrombin 3.4.21.5 0.791
2v3o I26Prothrombin 3.4.21.5 0.785
1ypk CCRProthrombin 3.4.21.5 0.780
3hat GLY_VAL_ARG_RNGProthrombin 3.4.21.5 0.774
2bdy UNBProthrombin 3.4.21.5 0.773
1o0d 163Prothrombin 3.4.21.5 0.771
1ta6 177Prothrombin 3.4.21.5 0.771
2v3h I25Prothrombin 3.4.21.5 0.771
1wqv PSMCoagulation factor VII 3.4.21.21 0.765
2cf8 ESHProthrombin 3.4.21.5 0.765
1wtg 3BPCoagulation factor VII 3.4.21.21 0.757
4ayy 9MXProthrombin 3.4.21.5 0.757
1ypj UIBProthrombin 3.4.21.5 0.755
3biu 10UProthrombin 3.4.21.5 0.754
4ayv 9MQProthrombin 3.4.21.5 0.751
2zgb 21UProthrombin 3.4.21.5 0.750
3dux 64UProthrombin 3.4.21.5 0.748
1c4u IH1Prothrombin 3.4.21.5 0.744
4az2 9MUProthrombin 3.4.21.5 0.744
2cn0 F25Prothrombin 3.4.21.5 0.741
2cf9 348Prothrombin 3.4.21.5 0.737
1ypg UIRProthrombin 3.4.21.5 0.734
2zhe 13UProthrombin 3.4.21.5 0.732
2zdv 37UProthrombin 3.4.21.5 0.729
1c5n ESIProthrombin 3.4.21.5 0.728
1ghv 120Prothrombin 3.4.21.5 0.728
2zf0 51UProthrombin 3.4.21.5 0.727
1t4v 14AProthrombin 3.4.21.5 0.726
1mu8 CDBProthrombin 3.4.21.5 0.723
2zff 53UProthrombin 3.4.21.5 0.721
3qwc 98PProthrombin 3.4.21.5 0.717
3p17 99PProthrombin 3.4.21.5 0.716
3plp BBACationic trypsin 3.4.21.4 0.715
1sl3 170Prothrombin 3.4.21.5 0.714
1mue CDDProthrombin 3.4.21.5 0.707
1wv7 5PICoagulation factor VII 3.4.21.21 0.707
1vja 7INUrokinase-type plasminogen activator 3.4.21.73 0.705
1nm6 L86Prothrombin 3.4.21.5 0.702
2zc9 22UProthrombin 3.4.21.5 0.702
1d4p BPPProthrombin 3.4.21.5 0.701
3c1k T15Prothrombin 3.4.21.5 0.701
1sqt UI3Urokinase-type plasminogen activator 3.4.21.73 0.699
2gde SN3Prothrombin 3.4.21.5 0.698
2zp0 PI0Coagulation factor VII 3.4.21.21 0.695
1ta2 176Prothrombin 3.4.21.5 0.693
4ax9 N5NProthrombin 3.4.21.5 0.692
1ae8 AZLProthrombin 3.4.21.5 0.690
2r2m I50Prothrombin 3.4.21.5 0.686
1mu6 CDAProthrombin 3.4.21.5 0.683
1lqd CMICoagulation factor X 3.4.21.6 0.682
1f92 UKPUrokinase-type plasminogen activator 3.4.21.73 0.681
1t4u 81AProthrombin 3.4.21.5 0.681
1c1u BAIProthrombin 3.4.21.5 0.680
7kme ACE_0BN_CHG_PRRProthrombin 3.4.21.5 0.680
3c27 DKKProthrombin 3.4.21.5 0.678
1owi 426Urokinase-type plasminogen activator 3.4.21.73 0.675
4d8n 0HMKallikrein-6 3.4.21 0.675
3qtv 06PProthrombin 3.4.21.5 0.673
1z71 L17Prothrombin 3.4.21.5 0.672
3dhk 23UProthrombin 3.4.21.5 0.672
3qto 10PProthrombin 3.4.21.5 0.668
1c4v IH2Prothrombin 3.4.21.5 0.665
2bxt C2DProthrombin 3.4.21.5 0.661
1kts C24Prothrombin 3.4.21.5 0.659
1vzq SHYProthrombin 3.4.21.5 0.659
1jwt BLIProthrombin 3.4.21.5 0.657
1xm1 GAHProthrombin 3.4.21.5 0.657
2c4f GILCoagulation factor VII 3.4.21.21 0.657
1ny2 ARG_PRO_PRO_GLYProthrombin 3.4.21.5 0.653
1uvs I11Prothrombin 3.4.21.5 0.653
3eq0 2TSProthrombin 3.4.21.5 0.650
3qdz PRO_ALA_PRO_ARGProthrombin 3.4.21.5 0.650