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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
1nt1 T76 Prothrombin 3.4.21.5

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
1nt1 T76Prothrombin 3.4.21.5 1.042
1ta6 177Prothrombin 3.4.21.5 0.938
2zgb 21UProthrombin 3.4.21.5 0.827
4bak M67Prothrombin 3.4.21.5 0.827
1k22 MELProthrombin 3.4.21.5 0.823
4bao MVFProthrombin 3.4.21.5 0.820
4bam MM9Prothrombin 3.4.21.5 0.819
4ban M6SProthrombin 3.4.21.5 0.814
4bah MELProthrombin 3.4.21.5 0.806
4baq M4ZProthrombin 3.4.21.5 0.805
1sl3 170Prothrombin 3.4.21.5 0.789
1z71 L17Prothrombin 3.4.21.5 0.785
2znk 31UProthrombin 3.4.21.5 0.775
1mue CDDProthrombin 3.4.21.5 0.774
2zfp 19UProthrombin 3.4.21.5 0.770
1nm6 L86Prothrombin 3.4.21.5 0.756
2bxt C2DProthrombin 3.4.21.5 0.751
1ta2 176Prothrombin 3.4.21.5 0.748
3c1k T15Prothrombin 3.4.21.5 0.748
2zhq 27UProthrombin 3.4.21.5 0.745
3qwc 98PProthrombin 3.4.21.5 0.744
2zda 32UProthrombin 3.4.21.5 0.743
3dux 64UProthrombin 3.4.21.5 0.739
3f68 91UProthrombin 3.4.21.5 0.735
2zdv 37UProthrombin 3.4.21.5 0.734
2zg0 50UProthrombin 3.4.21.5 0.731
3dhk 23UProthrombin 3.4.21.5 0.731
2zf0 51UProthrombin 3.4.21.5 0.730
1mu8 CDBProthrombin 3.4.21.5 0.729
2zc9 22UProthrombin 3.4.21.5 0.726
3utu 1TSProthrombin 3.4.21.5 0.725
3eq0 2TSProthrombin 3.4.21.5 0.724
1mu6 CDAProthrombin 3.4.21.5 0.723
3qto 10PProthrombin 3.4.21.5 0.722
1zrb 062Prothrombin 3.4.21.5 0.721
1nzq 162Prothrombin 3.4.21.5 0.715
3p17 99PProthrombin 3.4.21.5 0.714
2zgx 29UProthrombin 3.4.21.5 0.713
2zff 53UProthrombin 3.4.21.5 0.710
2zfq 45UProthrombin 3.4.21.5 0.703
1o0d 163Prothrombin 3.4.21.5 0.701
3qtv 06PProthrombin 3.4.21.5 0.699
2bvs 2CEProthrombin 3.4.21.5 0.696
2zi2 24UProthrombin 3.4.21.5 0.695
1ypl RA8Prothrombin 3.4.21.5 0.689
2anm CDOProthrombin 3.4.21.5 0.687
2ziq 26UProthrombin 3.4.21.5 0.680
2zhf 49UProthrombin 3.4.21.5 0.679
5cmx 0G6Prothrombin 3.4.21.5 0.678
1ypm RA4Prothrombin 3.4.21.5 0.674
4ayy 9MXProthrombin 3.4.21.5 0.674
4ax9 N5NProthrombin 3.4.21.5 0.671
2jh6 894Prothrombin 3.4.21.5 0.667
2a2x NA9Prothrombin 3.4.21.5 0.666
2gde SN3Prothrombin 3.4.21.5 0.665
1k21 IGNProthrombin 3.4.21.5 0.661
1sb1 165Prothrombin 3.4.21.5 0.661
2vh0 GSICoagulation factor X 3.4.21.6 0.659
4loy 6XSProthrombin 3.4.21.5 0.657
1d9i 00PProthrombin 3.4.21.5 0.656
1ype UIPProthrombin 3.4.21.5 0.656
1xm1 GAHProthrombin 3.4.21.5 0.655
2y5g FJDCoagulation factor X 3.4.21.6 0.653
1wqv PSMCoagulation factor VII 3.4.21.21 0.651
2jh0 701Prothrombin 3.4.21.5 0.651