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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
4gyi ADP Uncharacterized protein

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
4gyi ADPUncharacterized protein / 0.975
4nm7 ADPGlycogen synthase kinase-3 beta 2.7.11.26 0.802
1o6y ACPSerine/threonine-protein kinase PknB 2.7.11.1 0.800
3bu5 ATPInsulin receptor 2.7.10.1 0.800
4nm5 ADPGlycogen synthase kinase-3 beta 2.7.11.26 0.794
1mq4 ADPAurora kinase A 2.7.11.1 0.782
2b9f ADPMitogen-activated protein kinase FUS3 2.7.11.24 0.779
4ceg ADPAurora kinase A 2.7.11.1 0.779
4xlv ACPInsulin receptor 2.7.10.1 0.779
1l8t ADPAminoglycoside 3'-phosphotransferase 2.7.1.95 0.772
4dee ADPAurora kinase A 2.7.11.1 0.772
4gvj ADPNon-receptor tyrosine-protein kinase TYK2 2.7.10.2 0.768
4i3z ADPCyclin-dependent kinase 2 2.7.11.22 0.766
2pui ADPMethylthioribose kinase 2.7.1.100 0.765
2pyw ADPMethylthioribose kinase 2.7.1.100 0.763
4iaf ADPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.762
5dn3 ATPAurora kinase A 2.7.11.1 0.758
5cvh ADPCasein kinase II subunit alpha 2.7.11.1 0.757
4k33 ACPFibroblast growth factor receptor 3 2.7.10.1 0.756
2olc ADPMethylthioribose kinase 2.7.1.100 0.752
4fi1 ATPCasein kinase II subunit alpha 2.7.11.1 0.752
4mwh ATPCasein kinase II subunit alpha 2.7.11.1 0.752
2bkk ADPAminoglycoside 3'-phosphotransferase 2.7.1.95 0.751
4utd ACPAurora kinase A 2.7.11.1 0.751
5awm ANPStress-activated protein kinase JNK 2.7.11.24 0.750
1j7l ADPAminoglycoside 3'-phosphotransferase 2.7.1.95 0.746
5dr2 ATPAurora kinase A 2.7.11.1 0.746
4iai ADPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.744
4qpm ADPMitotic checkpoint serine/threonine-protein kinase BUB1 2.7.11.1 0.743
4r8q ADPMitotic checkpoint serine/threonine-protein kinase BUB1 2.7.11.1 0.742
3tm0 ANPAminoglycoside 3'-phosphotransferase 2.7.1.95 0.739
1zth ADPRIO-type serine/threonine-protein kinase Rio1 2.7.11.1 0.737
4dn5 AGSMitogen-activated protein kinase kinase kinase 14 2.7.11.25 0.736
2pup ADPMethylthioribose kinase 2.7.1.100 0.734
5dt3 ATPAurora kinase A 2.7.11.1 0.732
1q8y ADPSerine/threonine-protein kinase SKY1 2.7.11.1 0.731
1zar ADPRIO-type serine/threonine-protein kinase Rio2 2.7.11.1 0.731
2w4j ADPDeath-associated protein kinase 1 2.7.11.1 0.729
5iqb GNPBifunctional AAC/APH 2.3.1 0.729
2py3 ACPFibroblast growth factor receptor 2 / 0.727
1j7u ANPAminoglycoside 3'-phosphotransferase 2.7.1.95 0.725
5iqh GNPBifunctional AAC/APH 2.3.1 0.724
1phk ATPPhosphorylase b kinase gamma catalytic chain, skeletal muscle/heart isoform 2.7.11.19 0.723
3c4z ADPRhodopsin kinase / 0.723
2pz5 ACPFibroblast growth factor receptor 2 / 0.721
1lp4 ANPCasein kinase II subunit alpha 2.7.11.1 0.720
3g8d ADPBiotin carboxylase 6.3.4.14 0.720
4o4e ATPKinase / 0.719
4qny ANPMitogen activated protein kinase, putative / 0.717
4o4f ATPKinase / 0.716
5ce3 ADPProtein kinase YopO / 0.716
3nsz ANPCasein kinase II subunit alpha 2.7.11.1 0.715
4f9a ADPCell division cycle 7-related protein kinase 2.7.11.1 0.715
4jr7 GNPCasein kinase II subunit alpha 2.7.11.1 0.715
2vqd AP2Biotin carboxylase 6.3.4.14 0.713
3x2u ATPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.713
4krc AGSCyclin-dependent protein kinase PHO85 2.7.11.22 0.712
4uak ADPSerine/threonine-protein kinase MRCK beta 2.7.11.1 0.712
1t36 ADPCarbamoyl-phosphate synthase large chain / 0.711
4xw6 ADPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.711
3cly ACPFibroblast growth factor receptor 2 / 0.710
1pyx ANPGlycogen synthase kinase-3 beta 2.7.11.26 0.709
2dwb ANPAurora kinase A 2.7.11.1 0.709
4lfi GNPCasein kinase II subunit alpha 2.7.11.1 0.709
1xr1 ANPSerine/threonine-protein kinase pim-1 2.7.11.1 0.708
5iqe GNPBifunctional AAC/APH 2.3.1 0.707
2pzp ACPFibroblast growth factor receptor 2 / 0.706
3dnt ATPSerine/threonine-protein kinase toxin HipA / 0.706
1w2d ADPInositol-trisphosphate 3-kinase A 2.7.1.127 0.704
2w4k ADPDeath-associated protein kinase 1 2.7.11.1 0.704
3gu4 ANPDeath-associated protein kinase 1 2.7.11.1 0.703
4f99 ADPCell division cycle 7-related protein kinase 2.7.11.1 0.703
1j1c ADPGlycogen synthase kinase-3 beta 2.7.11.26 0.702
3akl ADPSerine/threonine-protein kinase CtkA 2.7.11.1 0.702
3t9e ADPInositol hexakisphosphate and diphosphoinositol-pentakisphosphate kinase 2 / 0.702
4ork GDPBifunctional AAC/APH 2.3.1 0.702
4y0x ADPSerine/threonine-protein kinase PknG 2.7.11.1 0.702
4btj ATPTau-tubulin kinase 1 2.7.11.1 0.701
1tqm ANPRIO-type serine/threonine-protein kinase Rio2 2.7.11.1 0.700
1w2c ANPInositol-trisphosphate 3-kinase A 2.7.1.127 0.700
3qc9 ADPRhodopsin kinase / 0.700
4oau ADP2-5A-dependent ribonuclease 3.1.26 0.700
1zp9 ATPRIO-type serine/threonine-protein kinase Rio1 2.7.11.1 0.699
2b0q ADPAminoglycoside 3'-phosphotransferase 2.7.1.95 0.699
4hpt ANPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.699
3tw6 ADPPyruvate carboxylase / 0.698
5eg3 ACPFibroblast growth factor receptor 2 / 0.698
1ol5 ADPAurora kinase A 2.7.11.1 0.697
3o7l ANPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.697
4iad ADPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.697
4o4d ATPKinase / 0.694
3gu7 ADPDeath-associated protein kinase 1 2.7.11.1 0.693
4ysj ADPCalmodulin-like domain protein kinase / 0.692
1tqp ATPRIO-type serine/threonine-protein kinase Rio2 2.7.11.1 0.691
1jkl ANPDeath-associated protein kinase 1 2.7.11.1 0.690
3g8c ADPBiotin carboxylase 6.3.4.14 0.689
3llt ANPProtein serine/threonine kinase-1 / 0.688
2pul ACPMethylthioribose kinase 2.7.1.100 0.687
2pun ACPMethylthioribose kinase 2.7.1.100 0.687
4oa9 ANPProtein BRASSINOSTEROID INSENSITIVE 1 2.7.10.1 0.687
4y12 AGSSerine/threonine-protein kinase PknG 2.7.11.1 0.685
5iqa GNPBifunctional AAC/APH 2.3.1 0.685
2b9j ADPMitogen-activated protein kinase FUS3 2.7.11.24 0.684
1cm8 ANPMitogen-activated protein kinase 12 / 0.683
4ic7 ANPMitogen-activated protein kinase 7 2.7.11.24 0.683
1daw ANPCasein kinase II subunit alpha 2.7.11.1 0.682
3vhx GTPADP-ribosylation factor 6 / 0.682
4ej7 ATPAminoglycoside 3'-phosphotransferase AphA1-IAB / 0.682
5byl GCPBifunctional AAC/APH 2.3.1 0.682
2b9i ADPMitogen-activated protein kinase FUS3 2.7.11.24 0.681
2ic5 GNPRas-related C3 botulinum toxin substrate 3 / 0.681
3att ATPPutative aminoglycoside phosphotransferase 2.7.1 0.681
4oav ACP2-5A-dependent ribonuclease 3.1.26 0.681
3gu5 ANPDeath-associated protein kinase 1 2.7.11.1 0.680
3rv4 ADPBiotin carboxylase 6.3.4.14 0.680
4dh5 ADPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.680
5dnr ATPAurora kinase A 2.7.11.1 0.680
1jnk ANPMitogen-activated protein kinase 10 2.7.11.24 0.679
5drd ATPAurora kinase A 2.7.11.1 0.679
2j9g ADPBiotin carboxylase 6.3.4.14 0.676
3t9a ANPInositol hexakisphosphate and diphosphoinositol-pentakisphosphate kinase 2 / 0.674
4eoo ATPCyclin-dependent kinase 2 2.7.11.22 0.673
5iqd GNPBifunctional AAC/APH 2.3.1 0.673
2if8 ADPInositol polyphosphate multikinase 2.7.1.151 0.672
3w8q AGSDual specificity mitogen-activated protein kinase kinase 1 2.7.12.2 0.672
3mjh GTPRas-related protein Rab-5A / 0.671
1gia GSPGuanine nucleotide-binding protein G(i) subunit alpha-1 / 0.670
1mh1 GNPRas-related C3 botulinum toxin substrate 1 / 0.669
3cx8 GSPGuanine nucleotide-binding protein subunit alpha-13 / 0.669
3sbd GNPRas-related C3 botulinum toxin substrate 1 / 0.669
4aw1 ATP3-phosphoinositide-dependent protein kinase 1 2.7.11.1 0.668
1yzq GNPRas-related protein Rab-6A / 0.667
1z2p ACPInositol-tetrakisphosphate 1-kinase 2.7.1.134 0.667
2phk ATPPhosphorylase b kinase gamma catalytic chain, skeletal muscle/heart isoform 2.7.11.19 0.667
4q4c ADPInositol hexakisphosphate and diphosphoinositol-pentakisphosphate kinase 2 / 0.667
5iqi GNPBifunctional AAC/APH 2.3.1 0.667
3t9f ADPInositol hexakisphosphate and diphosphoinositol-pentakisphosphate kinase 2 / 0.666
4dt8 ADNAPH(2'')-Id / 0.666
3c50 ADPRhodopsin kinase / 0.665
4ifc ADPSerine/threonine-protein kinase PRP4 homolog 2.7.11.1 0.665
1ig1 ANPDeath-associated protein kinase 1 2.7.11.1 0.664
4iir ANPSerine/threonine-protein kinase PRP4 homolog 2.7.11.1 0.664
5iqf GDPBifunctional AAC/APH 2.3.1 0.664
1ol7 ADPAurora kinase A 2.7.11.1 0.663
2dwp ACP6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase 3 2.7.1.105 0.663
3i12 ADPD-alanine--D-alanine ligase A 6.3.2.4 0.663
3zfd ANPChromosome-associated kinesin KIF4 / 0.663
4eom ATPCyclin-dependent kinase 2 2.7.11.22 0.663
4cvl ACPUDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase / 0.662
1jkk ANPDeath-associated protein kinase 1 2.7.11.1 0.661
3a7j ADPSerine/threonine-protein kinase 24 2.7.11.1 0.661
3akk ADPSerine/threonine-protein kinase CtkA 2.7.11.1 0.661
3tpt ADPSerine/threonine-protein kinase toxin HipA / 0.661
1o6k ANPRAC-beta serine/threonine-protein kinase 2.7.11.1 0.660
1ol6 ATPAurora kinase A 2.7.11.1 0.660
2bme GNPRas-related protein Rab-4A / 0.660
4bn1 ADPAurora kinase A 2.7.11.1 0.660
4ux9 ANPMitogen-activated protein kinase 8 2.7.11.24 0.658
4ffm ADPUncharacterized protein / 0.657
4ii5 ADPCyclin-dependent kinase 2 2.7.11.22 0.657
4n57 ADPAPH(2'')-Id / 0.657
3t99 ADPInositol hexakisphosphate and diphosphoinositol-pentakisphosphate kinase 2 / 0.656
3vpc ADPGlutamate--LysW ligase ArgX 6.3.2 0.656
4crs AGSSerine/threonine-protein kinase N2 2.7.11.13 0.656
4dh7 ANPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.656
4iay ADPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.656
2rio ADPSerine/threonine-protein kinase/endoribonuclease IRE1 2.7.11.1 0.655
2yaa ATPDeath-associated protein kinase 2 / 0.655
2y9q ANPMitogen-activated protein kinase 1 2.7.11.24 0.654
1pkg ADPMast/stem cell growth factor receptor Kit 2.7.10.1 0.653
2a19 ANPInterferon-induced, double-stranded RNA-activated protein kinase 2.7.11.1 0.653
2qo7 ANPEphrin type-A receptor 3 2.7.10.1 0.653
3wow ANPCasein kinase II subunit alpha 2.7.11.1 0.653
4wb6 ATPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.653
4fmq ANPMitogen-activated protein kinase 1 2.7.11.24 0.652
4lv8 ADPRhoptry protein 5 C / 0.652
4zs4 ATPMyosin heavy chain kinase A 2.7.11.7 0.652
2itv ANPEpidermal growth factor receptor 2.7.10.1 0.650
3mia ANPCyclin-dependent kinase 9 2.7.11.22 0.650
4nzo ANPInositol hexakisphosphate and diphosphoinositol-pentakisphosphate kinase 2 / 0.650
5bpf ADPD-alanine--D-alanine ligase / 0.650