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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
1nhk CMP Nucleoside diphosphate kinase 2.7.4.6

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
1nhk CMPNucleoside diphosphate kinase 2.7.4.6 0.878
4fkx CDPNucleoside diphosphate kinase / 0.683
4i0b CMPcAMP-activated global transcriptional regulator CRP / 0.678
4uoh ADPNucleoside diphosphate kinase / 0.677
4cnf MTASpoU rRNA methylase / 0.675
4cng SAHSpoU rRNA methylase / 0.673
4hbn CMPPotassium/sodium hyperpolarization-activated cyclic nucleotide-gated channel 4 / 0.669
4hr2 ADPNucleoside diphosphate kinase / 0.662
3ngu ADPNucleoside diphosphate kinase / 0.657
4qx5 CMPcGMP-dependent protein kinase 1 2.7.11.12 0.657
1cgp CMPcAMP-activated global transcriptional regulator CRP / 0.655
4pzk SAHPutative tRNA (cytidine(34)-2'-O)-methyltransferase / 0.655
3gf4 UPGUDP-galactopyranose mutase 5.4.99.9 0.652
4kgn SAHtRNA (cytidine(34)-2'-O)-methyltransferase / 0.651