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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
2zhw 12U Prothrombin 3.4.21.5

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
2zhw 12UProthrombin 3.4.21.5 0.907
2znk 31UProthrombin 3.4.21.5 0.813
2ziq 26UProthrombin 3.4.21.5 0.811
2zhe 13UProthrombin 3.4.21.5 0.809
4baq M4ZProthrombin 3.4.21.5 0.806
2zda 32UProthrombin 3.4.21.5 0.793
4bao MVFProthrombin 3.4.21.5 0.791
2zfq 45UProthrombin 3.4.21.5 0.790
1k22 MELProthrombin 3.4.21.5 0.788
3biv 11UProthrombin 3.4.21.5 0.787
1ypm RA4Prothrombin 3.4.21.5 0.785
2zi2 24UProthrombin 3.4.21.5 0.785
4bak M67Prothrombin 3.4.21.5 0.783
4ban M6SProthrombin 3.4.21.5 0.782
3utu 1TSProthrombin 3.4.21.5 0.778
2zhf 49UProthrombin 3.4.21.5 0.776
4bah MELProthrombin 3.4.21.5 0.772
3hat GLY_VAL_ARG_RNGProthrombin 3.4.21.5 0.768
2zg0 50UProthrombin 3.4.21.5 0.767
3biu 10UProthrombin 3.4.21.5 0.765
1ypl RA8Prothrombin 3.4.21.5 0.760
2cn0 F25Prothrombin 3.4.21.5 0.756
4bam MM9Prothrombin 3.4.21.5 0.755
2zfr 46UProthrombin 3.4.21.5 0.736
1vja 7INUrokinase-type plasminogen activator 3.4.21.73 0.733
2anm CDOProthrombin 3.4.21.5 0.725
1ghv 120Prothrombin 3.4.21.5 0.724
2a2x NA9Prothrombin 3.4.21.5 0.723
2cf9 348Prothrombin 3.4.21.5 0.723
1c5n ESIProthrombin 3.4.21.5 0.722
1c4u IH1Prothrombin 3.4.21.5 0.715
2v3h I25Prothrombin 3.4.21.5 0.715
2cf8 ESHProthrombin 3.4.21.5 0.712
5cmx 0G6Prothrombin 3.4.21.5 0.710
1c4v IH2Prothrombin 3.4.21.5 0.707
4az2 9MUProthrombin 3.4.21.5 0.705
1riw OSCProthrombin 3.4.21.5 0.703
1ny2 ARG_PRO_PRO_GLYProthrombin 3.4.21.5 0.702
3v0x ANHCationic trypsin 3.4.21.4 0.699
1sqt UI3Urokinase-type plasminogen activator 3.4.21.73 0.691
4ax9 N5NProthrombin 3.4.21.5 0.690
1vzq SHYProthrombin 3.4.21.5 0.689
1oyt FSNProthrombin 3.4.21.5 0.686
2zgx 29UProthrombin 3.4.21.5 0.684
2zhq 27UProthrombin 3.4.21.5 0.682
2bok 784Coagulation factor X 3.4.21.6 0.678
4ayy 9MXProthrombin 3.4.21.5 0.676
1k21 IGNProthrombin 3.4.21.5 0.673
4e7r 0NWProthrombin 3.4.21.5 0.672
1o0d 163Prothrombin 3.4.21.5 0.671
7kme ACE_0BN_CHG_PRRProthrombin 3.4.21.5 0.670
1wqv PSMCoagulation factor VII 3.4.21.21 0.669
1wtg 3BPCoagulation factor VII 3.4.21.21 0.663
2zf0 51UProthrombin 3.4.21.5 0.663
1drt PCVClavaminate synthase 1 1.14.11.21 0.660
4djw 0KPBeta-secretase 1 3.4.23.46 0.657
3jx0 JI4Nitric oxide synthase, brain 1.14.13.39 0.656
3tym 08RNitric oxide synthase, brain 1.14.13.39 0.656
4djy 0KRBeta-secretase 1 3.4.23.46 0.656
1lqd CMICoagulation factor X 3.4.21.6 0.655
1nzq 162Prothrombin 3.4.21.5 0.655
3tyl AXWNitric oxide synthase, brain 1.14.13.39 0.655
4jpc 1M6Beta-secretase 1 3.4.23.46 0.655
4azy 7F3Beta-secretase 1 3.4.23.46 0.654
1lpk CBBCoagulation factor X 3.4.21.6 0.653
3ufq HW5Nitric oxide synthase, brain 1.14.13.39 0.653
3nln JRSNitric oxide synthase, brain 1.14.13.39 0.652
1t4v 14AProthrombin 3.4.21.5 0.651
3nlr JRSNitric oxide synthase, brain 1.14.13.39 0.651
3nlk JSSNitric oxide synthase, brain 1.14.13.39 0.650
3ufo HW4Nitric oxide synthase, brain 1.14.13.39 0.650
4joo 1M4Beta-secretase 1 3.4.23.46 0.650