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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
2zda 32U Prothrombin 3.4.21.5

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
2zda 32UProthrombin 3.4.21.5 1.082
2zhq 27UProthrombin 3.4.21.5 1.004
2zgx 29UProthrombin 3.4.21.5 0.940
1riw OSCProthrombin 3.4.21.5 0.922
2znk 31UProthrombin 3.4.21.5 0.922
2zg0 50UProthrombin 3.4.21.5 0.909
3utu 1TSProthrombin 3.4.21.5 0.908
2zi2 24UProthrombin 3.4.21.5 0.904
2zfq 45UProthrombin 3.4.21.5 0.901
4ban M6SProthrombin 3.4.21.5 0.883
2zhf 49UProthrombin 3.4.21.5 0.880
3qwc 98PProthrombin 3.4.21.5 0.876
4bam MM9Prothrombin 3.4.21.5 0.869
2zfr 46UProthrombin 3.4.21.5 0.866
4bao MVFProthrombin 3.4.21.5 0.865
2ziq 26UProthrombin 3.4.21.5 0.859
3qtv 06PProthrombin 3.4.21.5 0.848
2anm CDOProthrombin 3.4.21.5 0.844
3p17 99PProthrombin 3.4.21.5 0.842
2zdv 37UProthrombin 3.4.21.5 0.841
2zc9 22UProthrombin 3.4.21.5 0.839
2a2x NA9Prothrombin 3.4.21.5 0.836
2zf0 51UProthrombin 3.4.21.5 0.836
2zff 53UProthrombin 3.4.21.5 0.836
4bak M67Prothrombin 3.4.21.5 0.834
1k21 IGNProthrombin 3.4.21.5 0.832
1ae8 AZLProthrombin 3.4.21.5 0.829
3dhk 23UProthrombin 3.4.21.5 0.828
1ypl RA8Prothrombin 3.4.21.5 0.809
4e7r 0NWProthrombin 3.4.21.5 0.809
1k22 MELProthrombin 3.4.21.5 0.806
1ypm RA4Prothrombin 3.4.21.5 0.805
1c4u IH1Prothrombin 3.4.21.5 0.799
3biv 11UProthrombin 3.4.21.5 0.798
1c4v IH2Prothrombin 3.4.21.5 0.796
2zhw 12UProthrombin 3.4.21.5 0.793
2v3h I25Prothrombin 3.4.21.5 0.791
2zhe 13UProthrombin 3.4.21.5 0.788
4bah MELProthrombin 3.4.21.5 0.787
4baq M4ZProthrombin 3.4.21.5 0.787
2gde SN3Prothrombin 3.4.21.5 0.780
1d4p BPPProthrombin 3.4.21.5 0.776
1ype UIPProthrombin 3.4.21.5 0.774
3hat GLY_VAL_ARG_RNGProthrombin 3.4.21.5 0.773
2zfp 19UProthrombin 3.4.21.5 0.768
1ta2 176Prothrombin 3.4.21.5 0.765
1wtg 3BPCoagulation factor VII 3.4.21.21 0.764
1ypg UIRProthrombin 3.4.21.5 0.758
1wqv PSMCoagulation factor VII 3.4.21.21 0.757
1ta6 177Prothrombin 3.4.21.5 0.756
1lpk CBBCoagulation factor X 3.4.21.6 0.754
4az2 9MUProthrombin 3.4.21.5 0.751
3qto 10PProthrombin 3.4.21.5 0.750
3dux 64UProthrombin 3.4.21.5 0.749
3plp BBACationic trypsin 3.4.21.4 0.748
1ypj UIBProthrombin 3.4.21.5 0.746
4ayy 9MXProthrombin 3.4.21.5 0.745
1g7u PEP2-dehydro-3-deoxyphosphooctonate aldolase 2.5.1.55 0.744
4e5i 0N9Polymerase acidic protein / 0.744
1nt1 T76Prothrombin 3.4.21.5 0.743
2v3o I26Prothrombin 3.4.21.5 0.743
4ax9 N5NProthrombin 3.4.21.5 0.742
2cn0 F25Prothrombin 3.4.21.5 0.740
5cmx 0G6Prothrombin 3.4.21.5 0.739
3eq0 2TSProthrombin 3.4.21.5 0.738
1zrb 062Prothrombin 3.4.21.5 0.732
7kme ACE_0BN_CHG_PRRProthrombin 3.4.21.5 0.730
2cf9 348Prothrombin 3.4.21.5 0.728
1vja 7INUrokinase-type plasminogen activator 3.4.21.73 0.727
1ypk CCRProthrombin 3.4.21.5 0.724
2zgb 21UProthrombin 3.4.21.5 0.724
1oyt FSNProthrombin 3.4.21.5 0.718
1o0d 163Prothrombin 3.4.21.5 0.716
2cf8 ESHProthrombin 3.4.21.5 0.716
1c5n ESIProthrombin 3.4.21.5 0.715
1ghv 120Prothrombin 3.4.21.5 0.715
1wv7 5PICoagulation factor VII 3.4.21.21 0.705
1sl3 170Prothrombin 3.4.21.5 0.702
1c1u BAIProthrombin 3.4.21.5 0.698
1d9i 00PProthrombin 3.4.21.5 0.698
1vzq SHYProthrombin 3.4.21.5 0.696
3c27 DKKProthrombin 3.4.21.5 0.688
1mue CDDProthrombin 3.4.21.5 0.676
3c1k T15Prothrombin 3.4.21.5 0.674
2pks G44Prothrombin 3.4.21.5 0.673
4ayv 9MQProthrombin 3.4.21.5 0.673
1t4v 14AProthrombin 3.4.21.5 0.671
2zp0 PI0Coagulation factor VII 3.4.21.21 0.670
1lqd CMICoagulation factor X 3.4.21.6 0.666
1xm1 GAHProthrombin 3.4.21.5 0.666
1zsk 421Coagulation factor XI 3.4.21.27 0.665
1nm6 L86Prothrombin 3.4.21.5 0.664
1uvs I11Prothrombin 3.4.21.5 0.663
3f68 91UProthrombin 3.4.21.5 0.661
4e5f 0N7Polymerase acidic protein / 0.660
1t4u 81AProthrombin 3.4.21.5 0.658
1z71 L17Prothrombin 3.4.21.5 0.658
1afe ALZProthrombin 3.4.21.5 0.653
1mu8 CDBProthrombin 3.4.21.5 0.653