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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
4uoh ADP Nucleoside diphosphate kinase

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
4uoh ADPNucleoside diphosphate kinase / 1.065
4fkx CDPNucleoside diphosphate kinase / 0.936
4uof DATNucleoside diphosphate kinase / 0.901
3bbf GDPNucleoside diphosphate kinase B 2.7.4.6 0.872
1zs6 ADPNucleoside diphosphate kinase 3 2.7.4.6 0.866
4uog YYYNucleoside diphosphate kinase / 0.863
1nue GDPNucleoside diphosphate kinase B 2.7.4.6 0.857
2dxe GDPNucleoside diphosphate kinase 2.7.4.6 0.838
2dy9 ADPNucleoside diphosphate kinase 2.7.4.6 0.835
2hvd ADPNucleoside diphosphate kinase A 2.7.4.6 0.830
2hve ADPNucleoside diphosphate kinase A 2.7.4.6 0.795
2az3 CDPNucleoside diphosphate kinase / 0.786
1ndc TYDNucleoside diphosphate kinase, cytosolic 2.7.4.6 0.757
3ngu ADPNucleoside diphosphate kinase / 0.755
3q8u ADPNucleoside diphosphate kinase / 0.732
2dxf GNPNucleoside diphosphate kinase 2.7.4.6 0.683
1nhk CMPNucleoside diphosphate kinase 2.7.4.6 0.677
1lwx AZDNucleoside diphosphate kinase, cytosolic 2.7.4.6 0.670
4hbn CMPPotassium/sodium hyperpolarization-activated cyclic nucleotide-gated channel 4 / 0.660
1vp6 CMPCyclic nucleotide-gated potassium channel mll3241 / 0.657
4ffl ADPUncharacterized protein / 0.657
4hr2 ADPNucleoside diphosphate kinase / 0.653
4i0b CMPcAMP-activated global transcriptional regulator CRP / 0.651
1be4 PCGNucleoside diphosphate kinase A 2 2.7.4.6 0.650
1ne6 SP1cAMP-dependent protein kinase type I-alpha regulatory subunit / 0.650
3t9e ADPInositol hexakisphosphate and diphosphoinositol-pentakisphosphate kinase 2 / 0.650
4ffr ATPUncharacterized protein / 0.650