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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
3x2v ATP cAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
3x2v ATPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 1.304
3x2w ATPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 1.263
4dg3 ANPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 1.222
4iac ACPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 1.220
3idb ANPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 1.203
4dh7 ANPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 1.177
3fjq ATPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 1.165
4wb6 ATPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 1.130
3fhi ANPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 1.128
2qcs ANPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 1.094
1o6k ANPRAC-beta serine/threonine-protein kinase 2.7.11.1 1.065
1cdk ANPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 1.063
4xw4 ANPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 1.038
4dh3 ATPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 1.037
4xw6 ADPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 1.014
4dh5 ADPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 1.007
4x6r ATPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.988
4hpt ANPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.973
2phk ATPPhosphorylase b kinase gamma catalytic chain, skeletal muscle/heart isoform 2.7.11.19 0.970
4iai ADPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.963
4xw5 ATPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.958
4iaf ADPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.953
4iad ADPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.933
4iak ADPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.914
1phk ATPPhosphorylase b kinase gamma catalytic chain, skeletal muscle/heart isoform 2.7.11.19 0.908
3idc ANPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.904
3x2u ATPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.874
4iay ADPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.871
4ib3 ADPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.860
4iaz ADPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.858
1q24 ATPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.856
5e92 ANPTGF-beta receptor type-2 2.7.11.30 0.856
1pyx ANPGlycogen synthase kinase-3 beta 2.7.11.26 0.847
4ekk ANPRAC-alpha serine/threonine-protein kinase 2.7.11.1 0.845
1lp4 ANPCasein kinase II subunit alpha 2.7.11.1 0.841
3t9a ANPInositol hexakisphosphate and diphosphoinositol-pentakisphosphate kinase 2 / 0.840
4lfi GNPCasein kinase II subunit alpha 2.7.11.1 0.835
4oa9 ANPProtein BRASSINOSTEROID INSENSITIVE 1 2.7.10.1 0.821
3t9d ANPInositol hexakisphosphate and diphosphoinositol-pentakisphosphate kinase 2 / 0.819
4gvj ADPNon-receptor tyrosine-protein kinase TYK2 2.7.10.2 0.816
4uak ADPSerine/threonine-protein kinase MRCK beta 2.7.11.1 0.811
3gu5 ANPDeath-associated protein kinase 1 2.7.11.1 0.798
3agl A03cAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.792
3dnt ATPSerine/threonine-protein kinase toxin HipA / 0.792
3o7l ANPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.791
2w4j ADPDeath-associated protein kinase 1 2.7.11.1 0.790
4ysj ADPCalmodulin-like domain protein kinase / 0.789
4aw1 ATP3-phosphoinositide-dependent protein kinase 1 2.7.11.1 0.778
1jkk ANPDeath-associated protein kinase 1 2.7.11.1 0.776
4fi1 ATPCasein kinase II subunit alpha 2.7.11.1 0.771
3tm0 ANPAminoglycoside 3'-phosphotransferase 2.7.1.95 0.770
4ej7 ATPAminoglycoside 3'-phosphotransferase AphA1-IAB / 0.770
4mwh ATPCasein kinase II subunit alpha 2.7.11.1 0.770
5iqb GNPBifunctional AAC/APH 2.3.1 0.765
1ig1 ANPDeath-associated protein kinase 1 2.7.11.1 0.764
1jbp ADPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.764
4c5c ATPD-alanine--D-alanine ligase B 6.3.2.4 0.764
2ioa ADPBifunctional glutathionylspermidine synthetase/amidase / 0.761
4h3q ANPMitogen-activated protein kinase 1 2.7.11.24 0.753
2pup ADPMethylthioribose kinase 2.7.1.100 0.751
4iir ANPSerine/threonine-protein kinase PRP4 homolog 2.7.11.1 0.750
4nm5 ADPGlycogen synthase kinase-3 beta 2.7.11.26 0.750
1j1c ADPGlycogen synthase kinase-3 beta 2.7.11.26 0.749
4f99 ADPCell division cycle 7-related protein kinase 2.7.11.1 0.748
4qny ANPMitogen activated protein kinase, putative / 0.748
1mq4 ADPAurora kinase A 2.7.11.1 0.747
2b9f ADPMitogen-activated protein kinase FUS3 2.7.11.24 0.746
4f9a ADPCell division cycle 7-related protein kinase 2.7.11.1 0.746
2vo7 M05cAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.744
3f5u ANPDeath-associated protein kinase 1 2.7.11.1 0.744
2w4k ADPDeath-associated protein kinase 1 2.7.11.1 0.742
3gu7 ADPDeath-associated protein kinase 1 2.7.11.1 0.741
2x0q ATPAlcaligin biosynthesis protein / 0.740
3vpb ADPGlutamate--LysW ligase ArgX 6.3.2 0.740
3gu6 ADPDeath-associated protein kinase 1 2.7.11.1 0.738
1a9x ADPCarbamoyl-phosphate synthase large chain / 0.736
2b9j ADPMitogen-activated protein kinase FUS3 2.7.11.24 0.736
4wbb ADPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.736
4dn5 AGSMitogen-activated protein kinase kinase kinase 14 2.7.11.25 0.735
2pml ANPUncharacterized protein / 0.734
3ori AGSSerine/threonine protein kinase / 0.734
4utd ACPAurora kinase A 2.7.11.1 0.734
4oau ADP2-5A-dependent ribonuclease 3.1.26 0.733
4krc AGSCyclin-dependent protein kinase PHO85 2.7.11.22 0.732
3udz ADPInositol-pentakisphosphate 2-kinase 2.7.1.158 0.731
5iqe GNPBifunctional AAC/APH 2.3.1 0.731
1q8y ADPSerine/threonine-protein kinase SKY1 2.7.11.1 0.730
4otp ADPSerine/threonine-protein kinase RIO1 2.7.11.1 0.730
4r8q ADPMitotic checkpoint serine/threonine-protein kinase BUB1 2.7.11.1 0.728
4qpm ADPMitotic checkpoint serine/threonine-protein kinase BUB1 2.7.11.1 0.727
3t9e ADPInositol hexakisphosphate and diphosphoinositol-pentakisphosphate kinase 2 / 0.726
4oav ACP2-5A-dependent ribonuclease 3.1.26 0.726
2pui ADPMethylthioribose kinase 2.7.1.100 0.725
5iqf GDPBifunctional AAC/APH 2.3.1 0.725
4dee ADPAurora kinase A 2.7.11.1 0.724
1daw ANPCasein kinase II subunit alpha 2.7.11.1 0.723
1z2p ACPInositol-tetrakisphosphate 1-kinase 2.7.1.134 0.723
4xlv ACPInsulin receptor 2.7.10.1 0.723
5iqa GNPBifunctional AAC/APH 2.3.1 0.723
4c5b ADPD-alanine--D-alanine ligase B 6.3.2.4 0.721
4nm7 ADPGlycogen synthase kinase-3 beta 2.7.11.26 0.721
4nzo ANPInositol hexakisphosphate and diphosphoinositol-pentakisphosphate kinase 2 / 0.719
1j7u ANPAminoglycoside 3'-phosphotransferase 2.7.1.95 0.717
2j0l ANPFocal adhesion kinase 1 2.7.10.2 0.717
3i12 ADPD-alanine--D-alanine ligase A 6.3.2.4 0.716
3orm AGSSerine/threonine protein kinase / 0.716
1qmz ATPCyclin-dependent kinase 2 2.7.11.22 0.715
1u5r ATPSerine/threonine-protein kinase TAO2 2.7.11.1 0.713
1zth ADPRIO-type serine/threonine-protein kinase Rio1 2.7.11.1 0.713
1csn ATPCasein kinase I homolog 1 2.7.11.1 0.712
5dr2 ATPAurora kinase A 2.7.11.1 0.711
2ijm ADPFocal adhesion kinase 1 2.7.10.2 0.710
5dt3 ATPAurora kinase A 2.7.11.1 0.710
1o6y ACPSerine/threonine-protein kinase PknB 2.7.11.1 0.709
3tdw GDPGentamicin resistance protein / 0.709
2b9i ADPMitogen-activated protein kinase FUS3 2.7.11.24 0.708
3hrf ATP3-phosphoinositide-dependent protein kinase 1 2.7.11.1 0.707
3rv4 ADPBiotin carboxylase 6.3.4.14 0.707
3gub GUBDeath-associated protein kinase 1 2.7.11.1 0.706
2io9 ADPBifunctional glutathionylspermidine synthetase/amidase / 0.705
3tdv GDPGentamicin resistance protein / 0.705
5iqd GNPBifunctional AAC/APH 2.3.1 0.705
5iqi GNPBifunctional AAC/APH 2.3.1 0.705
1l8t ADPAminoglycoside 3'-phosphotransferase 2.7.1.95 0.704
3akk ADPSerine/threonine-protein kinase CtkA 2.7.11.1 0.704
4i3z ADPCyclin-dependent kinase 2 2.7.11.22 0.704
1jkl ANPDeath-associated protein kinase 1 2.7.11.1 0.703
3c4z ADPRhodopsin kinase / 0.703
3nsz ANPCasein kinase II subunit alpha 2.7.11.1 0.703
4jr7 GNPCasein kinase II subunit alpha 2.7.11.1 0.703
5dos ATPAurora kinase A 2.7.11.1 0.703
1cm8 ANPMitogen-activated protein kinase 12 / 0.701
4o4d ATPKinase / 0.701
5dnr ATPAurora kinase A 2.7.11.1 0.701
3zo1 SIJcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.700
5ce3 ADPProtein kinase YopO / 0.700
4ork GDPBifunctional AAC/APH 2.3.1 0.699
5dn3 ATPAurora kinase A 2.7.11.1 0.699
3gu4 ANPDeath-associated protein kinase 1 2.7.11.1 0.697
3wnz ADPAlanine--anticapsin ligase / 0.697
4ifc ADPSerine/threonine-protein kinase PRP4 homolog 2.7.11.1 0.697
3cly ACPFibroblast growth factor receptor 2 / 0.696
4ux9 ANPMitogen-activated protein kinase 8 2.7.11.24 0.696
4bl1 ANPMaternal embryonic leucine zipper kinase 2.7.11.1 0.695
4crs AGSSerine/threonine-protein kinase N2 2.7.11.13 0.695
2rio ADPSerine/threonine-protein kinase/endoribonuclease IRE1 2.7.11.1 0.694
2xuu ADPDeath-associated protein kinase 1 2.7.11.1 0.694
3mvj XFEcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.693
4ceg ADPAurora kinase A 2.7.11.1 0.693
4ii5 ADPCyclin-dependent kinase 2 2.7.11.22 0.693
3t9f ADPInositol hexakisphosphate and diphosphoinositol-pentakisphosphate kinase 2 / 0.692
5dt4 ATPAurora kinase A 2.7.11.1 0.692
2vnw M01cAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.691
3dfc ANPDeath-associated protein kinase 1 2.7.11.1 0.691
3oij SAHRibosomal RNA small subunit methyltransferase NEP1 / 0.691
3t54 ATPInositol hexakisphosphate and diphosphoinositol-pentakisphosphate kinase 2 / 0.691
4q4c ADPInositol hexakisphosphate and diphosphoinositol-pentakisphosphate kinase 2 / 0.691
1m0w ANPGlutathione synthetase 6.3.2.3 0.690
3qc9 ADPRhodopsin kinase / 0.690
4azw ATPO-antigen chain terminator bifunctional methyltransferase/kinase WbdD / 0.690
4ct2 ATP3-phosphoinositide-dependent protein kinase 1 2.7.11.1 0.690
4nif ANPMitogen-activated protein kinase 1 2.7.11.24 0.690
4eoo ATPCyclin-dependent kinase 2 2.7.11.22 0.689
4lv7 ADPInositol-pentakisphosphate 2-kinase 2.7.1.158 0.688
2io7 ANPBifunctional glutathionylspermidine synthetase/amidase / 0.687
3c4w ATPRhodopsin kinase / 0.686
4fl1 ANPTyrosine-protein kinase SYK 2.7.10.2 0.686
1jdb ADPCarbamoyl-phosphate synthase large chain / 0.685
1q97 ATPSerine/threonine-protein kinase SKY1 2.7.11.1 0.685
3ump ATPATP-dependent 6-phosphofructokinase isozyme 2 2.7.1.11 0.684
3mfs ANPPeripheral plasma membrane protein CASK 2.7.11.1 0.682
3t8o ATPRhodopsin kinase / 0.681
4k33 ACPFibroblast growth factor receptor 3 2.7.10.1 0.680
1sxj AGSReplication factor C subunit 1 / 0.679
4yxs EMUcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.679
1tqm ANPRIO-type serine/threonine-protein kinase Rio2 2.7.11.1 0.677
4fmq ANPMitogen-activated protein kinase 1 2.7.11.24 0.677
1ol6 ATPAurora kinase A 2.7.11.1 0.676
1jnk ANPMitogen-activated protein kinase 10 2.7.11.24 0.674
2p0a ANPSynapsin-3 / 0.674
3att ATPPutative aminoglycoside phosphotransferase 2.7.1 0.674
3niz ADPCdc2-like CDK2/CDC28 like protein kinase / 0.674
5iqh GNPBifunctional AAC/APH 2.3.1 0.674
2vqd AP2Biotin carboxylase 6.3.4.14 0.673
3q1k ADPD-alanine--D-alanine ligase A 6.3.2.4 0.673
4n57 ADPAPH(2'')-Id / 0.673
1z2n ADPInositol-tetrakisphosphate 1-kinase 2.7.1.134 0.672
2py3 ACPFibroblast growth factor receptor 2 / 0.672
4jqe ANPCasein kinase II subunit alpha 2.7.11.1 0.672
2xrw ANPMitogen-activated protein kinase 8 2.7.11.24 0.671
2ijm ATPFocal adhesion kinase 1 2.7.10.2 0.670
1mp8 ADPFocal adhesion kinase 1 2.7.10.2 0.669
2hen ADPEphrin type-B receptor 2 2.7.10.1 0.669
2pz5 ACPFibroblast growth factor receptor 2 / 0.669
2w02 ATPAcsD / 0.669
3c50 ADPRhodopsin kinase / 0.669
3eth ATPN5-carboxyaminoimidazole ribonucleotide synthase / 0.669
3zfd ANPChromosome-associated kinesin KIF4 / 0.669
4bn1 ADPAurora kinase A 2.7.11.1 0.669
4pds ANPSerine/threonine-protein kinase RAD53 2.7.12.1 0.669
5byl GCPBifunctional AAC/APH 2.3.1 0.669
1i44 ACPInsulin receptor 2.7.10.1 0.668
2e15 SAHDiphthine synthase / 0.668
4bwa N0BPyrrolysine--tRNA ligase / 0.668
4mkf AP5Adenylate kinase / 0.668
2fsn ADPArchaeal actin homolog / 0.667
2vo0 M03cAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.667
4aqk ADPInositol-pentakisphosphate 2-kinase 2.7.1.158 0.667
4ocp ADPN-acetylhexosamine 1-kinase 2.7.1.162 0.667
3g8c ADPBiotin carboxylase 6.3.4.14 0.666
4bfm ANPMaternal embryonic leucine zipper kinase 2.7.11.1 0.666
4xx9 ATP3-phosphoinositide-dependent protein kinase 1 2.7.11.1 0.666
1j1b ANPGlycogen synthase kinase-3 beta 2.7.11.26 0.665
4rrv ATP3-phosphoinositide-dependent protein kinase 1 2.7.11.1 0.665
4zgn ATPCell division cycle protein 123 / 0.665
3vjn ANPEpidermal growth factor receptor 2.7.10.1 0.664
5c46 GSPRas-related protein Rab-11A / 0.664
1xr1 ANPSerine/threonine-protein kinase pim-1 2.7.11.1 0.663
3bu5 ATPInsulin receptor 2.7.10.1 0.663
1mru AGSSerine/threonine-protein kinase PknB 2.7.11.1 0.662
1w2d ADPInositol-trisphosphate 3-kinase A 2.7.1.127 0.662
3w8q AGSDual specificity mitogen-activated protein kinase kinase 1 2.7.12.2 0.662
3llt ANPProtein serine/threonine kinase-1 / 0.661
3mia ANPCyclin-dependent kinase 9 2.7.11.22 0.661
3ufx GDPSuccinate--CoA ligase [GDP-forming] subunit beta / 0.661
2xs0 ANPMitogen-activated protein kinase 8 2.7.11.24 0.660
4cki ADNProto-oncogene tyrosine-protein kinase receptor Ret 2.7.10.1 0.660
4rqk ATP3-phosphoinositide-dependent protein kinase 1 2.7.11.1 0.660
4wh2 ADPN-acetylhexosamine 1-kinase 2.7.1.162 0.660
1u54 ACPActivated CDC42 kinase 1 / 0.659
2pzp ACPFibroblast growth factor receptor 2 / 0.659
2wtk ANPSTE20-related kinase adapter protein alpha / 0.659
3e9h KAALysine--tRNA ligase 6.1.1.6 0.658
4o1p ANPRibonuclease L / 0.658
2qaj AP5Adenylate kinase / 0.656
4ic7 ANPMitogen-activated protein kinase 7 2.7.11.24 0.656
4gv1 0XZRAC-alpha serine/threonine-protein kinase 2.7.11.1 0.655
4tyq AP5Adenylate kinase / 0.655
1zp9 ATPRIO-type serine/threonine-protein kinase Rio1 2.7.11.1 0.654
2e7r SAHDiphthine synthase / 0.654
3t99 ADPInositol hexakisphosphate and diphosphoinositol-pentakisphosphate kinase 2 / 0.654
5c1o ANPD-alanine--D-alanine ligase / 0.654
5cvh ADPCasein kinase II subunit alpha 2.7.11.1 0.654
2e07 SAHDiphthine synthase / 0.653
2ehl SAHDiphthine synthase / 0.653
2p6i SAHDiphthine synthase / 0.652
3zo4 QWIcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.652
4ffl ADPUncharacterized protein / 0.651
5awm ANPStress-activated protein kinase JNK 2.7.11.24 0.651
2c2a ADPSensor histidine kinase / 0.650
3bwj ARXcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.650