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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
3utu 1TS Prothrombin 3.4.21.5

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
3utu 1TSProthrombin 3.4.21.5 1.227
2ziq 26UProthrombin 3.4.21.5 0.945
2znk 31UProthrombin 3.4.21.5 0.937
2zhq 27UProthrombin 3.4.21.5 0.927
2zda 32UProthrombin 3.4.21.5 0.908
2zg0 50UProthrombin 3.4.21.5 0.896
2zhe 13UProthrombin 3.4.21.5 0.873
2zfr 46UProthrombin 3.4.21.5 0.868
4bah MELProthrombin 3.4.21.5 0.864
4bao MVFProthrombin 3.4.21.5 0.864
3biv 11UProthrombin 3.4.21.5 0.856
2zfq 45UProthrombin 3.4.21.5 0.846
2zi2 24UProthrombin 3.4.21.5 0.845
2anm CDOProthrombin 3.4.21.5 0.841
2zhf 49UProthrombin 3.4.21.5 0.832
4ban M6SProthrombin 3.4.21.5 0.831
4bak M67Prothrombin 3.4.21.5 0.830
1k22 MELProthrombin 3.4.21.5 0.828
4baq M4ZProthrombin 3.4.21.5 0.827
1ypl RA8Prothrombin 3.4.21.5 0.809
3biu 10UProthrombin 3.4.21.5 0.806
1riw OSCProthrombin 3.4.21.5 0.804
1ypm RA4Prothrombin 3.4.21.5 0.802
2bdy UNBProthrombin 3.4.21.5 0.796
2a2x NA9Prothrombin 3.4.21.5 0.783
2zhw 12UProthrombin 3.4.21.5 0.778
1c4v IH2Prothrombin 3.4.21.5 0.776
4bam MM9Prothrombin 3.4.21.5 0.774
1d4p BPPProthrombin 3.4.21.5 0.771
1k21 IGNProthrombin 3.4.21.5 0.769
1vja 7INUrokinase-type plasminogen activator 3.4.21.73 0.767
1lpk CBBCoagulation factor X 3.4.21.6 0.766
4e7r 0NWProthrombin 3.4.21.5 0.765
1wqv PSMCoagulation factor VII 3.4.21.21 0.764
3dux 64UProthrombin 3.4.21.5 0.753
4ayy 9MXProthrombin 3.4.21.5 0.751
2zgx 29UProthrombin 3.4.21.5 0.750
3dhk 23UProthrombin 3.4.21.5 0.750
3qwc 98PProthrombin 3.4.21.5 0.750
2cf8 ESHProthrombin 3.4.21.5 0.748
1g7u PEP2-dehydro-3-deoxyphosphooctonate aldolase 2.5.1.55 0.744
4e5i 0N9Polymerase acidic protein / 0.744
3p17 99PProthrombin 3.4.21.5 0.743
1nzq 162Prothrombin 3.4.21.5 0.741
1ype UIPProthrombin 3.4.21.5 0.741
2zfp 19UProthrombin 3.4.21.5 0.741
2zff 53UProthrombin 3.4.21.5 0.740
1wv7 5PICoagulation factor VII 3.4.21.21 0.736
2cf9 348Prothrombin 3.4.21.5 0.736
3hat GLY_VAL_ARG_RNGProthrombin 3.4.21.5 0.735
2zdv 37UProthrombin 3.4.21.5 0.734
2cn0 F25Prothrombin 3.4.21.5 0.733
2zgb 21UProthrombin 3.4.21.5 0.732
2zf0 51UProthrombin 3.4.21.5 0.731
2gde SN3Prothrombin 3.4.21.5 0.729
4az2 9MUProthrombin 3.4.21.5 0.727
1nt1 T76Prothrombin 3.4.21.5 0.725
1c5n ESIProthrombin 3.4.21.5 0.723
3c1k T15Prothrombin 3.4.21.5 0.723
1ta6 177Prothrombin 3.4.21.5 0.721
3plp BBACationic trypsin 3.4.21.4 0.717
3qtv 06PProthrombin 3.4.21.5 0.715
1ypk CCRProthrombin 3.4.21.5 0.713
7kme ACE_0BN_CHG_PRRProthrombin 3.4.21.5 0.713
2zc9 22UProthrombin 3.4.21.5 0.711
1zrb 062Prothrombin 3.4.21.5 0.709
5cmx 0G6Prothrombin 3.4.21.5 0.708
1ypj UIBProthrombin 3.4.21.5 0.706
4ayv 9MQProthrombin 3.4.21.5 0.704
3eq0 2TSProthrombin 3.4.21.5 0.702
1o0d 163Prothrombin 3.4.21.5 0.699
1ta2 176Prothrombin 3.4.21.5 0.697
2v3o I26Prothrombin 3.4.21.5 0.696
1sl3 170Prothrombin 3.4.21.5 0.695
1kts C24Prothrombin 3.4.21.5 0.693
3qto 10PProthrombin 3.4.21.5 0.692
1nm6 L86Prothrombin 3.4.21.5 0.690
2pks G44Prothrombin 3.4.21.5 0.689
2zp0 PI0Coagulation factor VII 3.4.21.21 0.683
4ax9 N5NProthrombin 3.4.21.5 0.682
3c27 DKKProthrombin 3.4.21.5 0.681
1wtg 3BPCoagulation factor VII 3.4.21.21 0.680
1ypg UIRProthrombin 3.4.21.5 0.678
1t4v 14AProthrombin 3.4.21.5 0.677
1vzq SHYProthrombin 3.4.21.5 0.675
1mu8 CDBProthrombin 3.4.21.5 0.674
1uvs I11Prothrombin 3.4.21.5 0.671
1d6w 00RProthrombin 3.4.21.5 0.669
1mu6 CDAProthrombin 3.4.21.5 0.669
1z71 L17Prothrombin 3.4.21.5 0.667
1ae8 AZLProthrombin 3.4.21.5 0.666
1ny2 ARG_PRO_PRO_GLYProthrombin 3.4.21.5 0.666
1owi 426Urokinase-type plasminogen activator 3.4.21.73 0.664
1xm1 GAHProthrombin 3.4.21.5 0.663
1f92 UKPUrokinase-type plasminogen activator 3.4.21.73 0.660
1oyt FSNProthrombin 3.4.21.5 0.660
4e5f 0N7Polymerase acidic protein / 0.660
1c1w BAHProthrombin 3.4.21.5 0.656
1c4u IH1Prothrombin 3.4.21.5 0.654