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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
4jlb ADP Adenylate kinase

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
4jlb ADPAdenylate kinase / 1.214
4jl8 ADPAdenylate kinase / 1.106
4jla ADPAdenylate kinase / 1.002
4x8l AP5Adenylate kinase / 0.886
4jlp ADPAdenylate kinase / 0.844
4nu0 AP5Adenylate kinase / 0.844
4x8o AP5Adenylate kinase / 0.843
1e4y AP5Adenylate kinase / 0.840
4mkh AP5Adenylate kinase / 0.817
4qbf AP5Adenylate kinase / 0.812
4w5j AP5Adenylate kinase / 0.799
4qbg AP5Adenylate kinase / 0.797
2eu8 AP5Adenylate kinase / 0.790
4mkg AP5Adenylate kinase / 0.789
2qaj AP5Adenylate kinase / 0.785
3hpr AP5Adenylate kinase / 0.776
3hpq AP5Adenylate kinase / 0.772
4qbi AP5Adenylate kinase / 0.769
3dl0 AP5Adenylate kinase / 0.765
1zio AP5Adenylate kinase / 0.754
2oo7 AP5Adenylate kinase / 0.741
2aky AP5Adenylate kinase / 0.740
4qbh AP5Adenylate kinase / 0.735
4mkf AP5Adenylate kinase / 0.734
1p3j AP5Adenylate kinase / 0.729
3aky AP5Adenylate kinase / 0.728
1s3g AP5Adenylate kinase / 0.712
4mam A12N5-carboxyaminoimidazole ribonucleotide synthase / 0.698
4tyq AP5Adenylate kinase / 0.682
2ioa ADPBifunctional glutathionylspermidine synthetase/amidase / 0.674
3dkv AP5Adenylate kinase / 0.674
2osb AP5Adenylate kinase / 0.666
4s1h ADPPyridoxal kinase, putative / 0.665
1pk8 ATPSynapsin-1 / 0.659
4fu0 ADPD-alanine--D-alanine ligase / 0.659
3vpb ADPGlutamate--LysW ligase ArgX 6.3.2 0.658
1e4v AP5Adenylate kinase / 0.656
2egv SAMRibosomal RNA small subunit methyltransferase E 2.1.1.193 0.656
3tw6 ADPPyruvate carboxylase / 0.654
2fyc GDUBeta-1,4-galactosyltransferase 1 2.4.1 0.653
2r7n ADP5-formaminoimidazole-4-carboxamide-1-(beta)-D-ribofuranosyl 5'-monophosphate synthetase / 0.653