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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
2w5a ADP Serine/threonine-protein kinase Nek2 2.7.11.1

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
2w5a ADPSerine/threonine-protein kinase Nek2 2.7.11.1 1.037
2pvr ANPCasein kinase II subunit alpha 2.7.11.1 0.677
3lct ADPALK tyrosine kinase receptor 2.7.10.1 0.676
5bsm ATP4-coumarate--CoA ligase 2 6.2.1.12 0.675
2w5b AGSSerine/threonine-protein kinase Nek2 2.7.11.1 0.672
5bpf ADPD-alanine--D-alanine ligase / 0.670
3dzd ADPTranscriptional regulator (NtrC family) / 0.669
4r2l ATPUniversal stress protein F / 0.669
4tnp DCPDeoxynucleoside triphosphate triphosphohydrolase SAMHD1 3.1.5 0.668
2cvv ANPRibonucleoside-diphosphate reductase large chain 1 1.17.4.1 0.667
3mfu ANPPeripheral plasma membrane protein CASK 2.7.11.1 0.666
4c3r ACPAurora kinase A 2.7.11.1 0.664
3ftq GNPSeptin-2 / 0.663
3ork AGSSerine/threonine protein kinase / 0.662
2olr ATPPhosphoenolpyruvate carboxykinase (ATP) / 0.661
4tnq TTPDeoxynucleoside triphosphate triphosphohydrolase SAMHD1 3.1.5 0.661
1b38 ATPCyclin-dependent kinase 2 2.7.11.22 0.660
1mqb ANPEphrin type-A receptor 2 2.7.10.1 0.660
3lmi ATPMyosin heavy chain kinase A 2.7.11.7 0.660
3s8a DGTRibonucleoside-diphosphate reductase large chain 1 1.17.4.1 0.660
4fvq ATPTyrosine-protein kinase JAK2 / 0.660
4lv5 ADPRhoptry protein 5B / 0.660
4y6n UPGGlucosyl-3-phosphoglycerate synthase 2.4.1.266 0.660
2eva ADNMitogen-activated protein kinase kinase kinase 7 2.7.11.25 0.659
2qo7 ANPEphrin type-A receptor 3 2.7.10.1 0.659
4fkx CDPNucleoside diphosphate kinase / 0.659
1n75 ATPGlutamate--tRNA ligase 6.1.1.17 0.658
2ywv ADPPhosphoribosylaminoimidazole-succinocarboxamide synthase / 0.658
3zec ANPAdenosine monophosphate-protein transferase SoFic 2.7.7.n1 0.658
4h3p ANPMitogen-activated protein kinase 1 2.7.11.24 0.658
2olq ATPPhosphoenolpyruvate carboxykinase (ATP) / 0.657
3ung ADPCRISPR system Cmr subunit Cmr2 / 0.657
1iah ADPTransient receptor potential cation channel subfamily M member 7 2.7.11.1 0.656
1lwx AZDNucleoside diphosphate kinase, cytosolic 2.7.4.6 0.655
4gt3 ATPMitogen-activated protein kinase 1 2.7.11.24 0.655
4wrk DUPDUTPase / 0.655
3fhy ATPPyridoxal kinase 2.7.1.35 0.654
4ajj 88RL-lactate dehydrogenase A chain 1.1.1.27 0.654
4c5b ADPD-alanine--D-alanine ligase B 6.3.2.4 0.654
5c1o ANPD-alanine--D-alanine ligase / 0.654
1dub CAAEnoyl-CoA hydratase, mitochondrial 4.2.1.17 0.651
5jqw ADPN5-carboxyaminoimidazole ribonucleotide synthase / 0.651
1m0w ANPGlutathione synthetase 6.3.2.3 0.650
1oiy N41Cyclin-dependent kinase 2 2.7.11.22 0.650
1q24 ATPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.650
1wua ATPActin, alpha skeletal muscle / 0.650
2oap ANPType II secretion system protein (GspE-2) / 0.650
2xka GSPCell division protein FtsZ / 0.650