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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
1nm6 L86 Prothrombin 3.4.21.5

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
1nm6 L86Prothrombin 3.4.21.5 0.994
1z71 L17Prothrombin 3.4.21.5 0.896
1sl3 170Prothrombin 3.4.21.5 0.885
1mu6 CDAProthrombin 3.4.21.5 0.827
1mue CDDProthrombin 3.4.21.5 0.827
2bxt C2DProthrombin 3.4.21.5 0.814
1mu8 CDBProthrombin 3.4.21.5 0.792
2zgb 21UProthrombin 3.4.21.5 0.762
1nt1 T76Prothrombin 3.4.21.5 0.756
3c1k T15Prothrombin 3.4.21.5 0.753
1g7u PEP2-dehydro-3-deoxyphosphooctonate aldolase 2.5.1.55 0.744
2r2m I50Prothrombin 3.4.21.5 0.743
1ta2 176Prothrombin 3.4.21.5 0.741
1ta6 177Prothrombin 3.4.21.5 0.727
4bah MELProthrombin 3.4.21.5 0.720
3c27 DKKProthrombin 3.4.21.5 0.715
2zfp 19UProthrombin 3.4.21.5 0.707
2znk 31UProthrombin 3.4.21.5 0.705
4bao MVFProthrombin 3.4.21.5 0.702
1k22 MELProthrombin 3.4.21.5 0.699
4bak M67Prothrombin 3.4.21.5 0.699
3dhk 23UProthrombin 3.4.21.5 0.692
3dux 64UProthrombin 3.4.21.5 0.690
3utu 1TSProthrombin 3.4.21.5 0.690
4bam MM9Prothrombin 3.4.21.5 0.689
3eq0 2TSProthrombin 3.4.21.5 0.684
1zrb 062Prothrombin 3.4.21.5 0.683
2zhq 27UProthrombin 3.4.21.5 0.683
2bdy UNBProthrombin 3.4.21.5 0.681
2zf0 51UProthrombin 3.4.21.5 0.680
2zff 53UProthrombin 3.4.21.5 0.679
3qwc 98PProthrombin 3.4.21.5 0.678
2zc9 22UProthrombin 3.4.21.5 0.676
4ban M6SProthrombin 3.4.21.5 0.674
2zda 32UProthrombin 3.4.21.5 0.664
1d6w 00RProthrombin 3.4.21.5 0.663
2zdv 37UProthrombin 3.4.21.5 0.660
4e5f 0N7Polymerase acidic protein / 0.660
2zhf 49UProthrombin 3.4.21.5 0.658
2zi2 24UProthrombin 3.4.21.5 0.655
1ype UIPProthrombin 3.4.21.5 0.654
4ayy 9MXProthrombin 3.4.21.5 0.653
4baq M4ZProthrombin 3.4.21.5 0.653