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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
1afe ALZ Prothrombin 3.4.21.5

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
1afe ALZProthrombin 3.4.21.5 1.007
1ae8 AZLProthrombin 3.4.21.5 0.806
2zfr 46UProthrombin 3.4.21.5 0.746
1g7u PEP2-dehydro-3-deoxyphosphooctonate aldolase 2.5.1.55 0.744
4e5i 0N9Polymerase acidic protein / 0.744
2znk 31UProthrombin 3.4.21.5 0.734
2zhf 49UProthrombin 3.4.21.5 0.729
2zi2 24UProthrombin 3.4.21.5 0.727
2zg0 50UProthrombin 3.4.21.5 0.718
2gde SN3Prothrombin 3.4.21.5 0.714
1ypl RA8Prothrombin 3.4.21.5 0.704
2zfq 45UProthrombin 3.4.21.5 0.700
1ypm RA4Prothrombin 3.4.21.5 0.689
4bam MM9Prothrombin 3.4.21.5 0.687
2zff 53UProthrombin 3.4.21.5 0.684
2zfp 19UProthrombin 3.4.21.5 0.684
2zdv 37UProthrombin 3.4.21.5 0.683
2zhq 27UProthrombin 3.4.21.5 0.683
2ziq 26UProthrombin 3.4.21.5 0.680
2zf0 51UProthrombin 3.4.21.5 0.679
4bah MELProthrombin 3.4.21.5 0.678
1d9i 00PProthrombin 3.4.21.5 0.677
4baq M4ZProthrombin 3.4.21.5 0.677
1k21 IGNProthrombin 3.4.21.5 0.676
3biv 11UProthrombin 3.4.21.5 0.675
3qwc 98PProthrombin 3.4.21.5 0.673
2zgx 29UProthrombin 3.4.21.5 0.671
3dux 64UProthrombin 3.4.21.5 0.671
3hat GLY_VAL_ARG_RNGProthrombin 3.4.21.5 0.669
5cmx 0G6Prothrombin 3.4.21.5 0.669
3eq0 2TSProthrombin 3.4.21.5 0.665
1ta6 177Prothrombin 3.4.21.5 0.664
2zgb 21UProthrombin 3.4.21.5 0.663
4bak M67Prothrombin 3.4.21.5 0.663
4e5f 0N7Polymerase acidic protein / 0.660
1mu8 CDBProthrombin 3.4.21.5 0.659
3f68 91UProthrombin 3.4.21.5 0.654
2cn0 F25Prothrombin 3.4.21.5 0.653
2zc9 22UProthrombin 3.4.21.5 0.653
2zda 32UProthrombin 3.4.21.5 0.653