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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
4oau ADP 2-5A-dependent ribonuclease 3.1.26

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
4oau ADP2-5A-dependent ribonuclease 3.1.26 1.015
4i3z ADPCyclin-dependent kinase 2 2.7.11.22 0.854
4uak ADPSerine/threonine-protein kinase MRCK beta 2.7.11.1 0.844
4qpm ADPMitotic checkpoint serine/threonine-protein kinase BUB1 2.7.11.1 0.832
4gvj ADPNon-receptor tyrosine-protein kinase TYK2 2.7.10.2 0.830
4nm5 ADPGlycogen synthase kinase-3 beta 2.7.11.26 0.827
5e92 ANPTGF-beta receptor type-2 2.7.11.30 0.825
4oav ACP2-5A-dependent ribonuclease 3.1.26 0.823
4r8q ADPMitotic checkpoint serine/threonine-protein kinase BUB1 2.7.11.1 0.821
5ce3 ADPProtein kinase YopO / 0.816
1phk ATPPhosphorylase b kinase gamma catalytic chain, skeletal muscle/heart isoform 2.7.11.19 0.810
4nm7 ADPGlycogen synthase kinase-3 beta 2.7.11.26 0.806
4dh5 ADPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.797
4iaf ADPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.797
4ii5 ADPCyclin-dependent kinase 2 2.7.11.22 0.794
1lp4 ANPCasein kinase II subunit alpha 2.7.11.1 0.790
2b9j ADPMitogen-activated protein kinase FUS3 2.7.11.24 0.790
4hpt ANPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.790
4oa9 ANPProtein BRASSINOSTEROID INSENSITIVE 1 2.7.10.1 0.789
5dr2 ATPAurora kinase A 2.7.11.1 0.789
4fi1 ATPCasein kinase II subunit alpha 2.7.11.1 0.786
4mwh ATPCasein kinase II subunit alpha 2.7.11.1 0.786
1q8y ADPSerine/threonine-protein kinase SKY1 2.7.11.1 0.784
1pyx ANPGlycogen synthase kinase-3 beta 2.7.11.26 0.780
4dee ADPAurora kinase A 2.7.11.1 0.779
2pyw ADPMethylthioribose kinase 2.7.1.100 0.778
4iad ADPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.778
1j1c ADPGlycogen synthase kinase-3 beta 2.7.11.26 0.777
1qmz ATPCyclin-dependent kinase 2 2.7.11.22 0.776
4q4c ADPInositol hexakisphosphate and diphosphoinositol-pentakisphosphate kinase 2 / 0.775
4ceg ADPAurora kinase A 2.7.11.1 0.772
1o6k ANPRAC-beta serine/threonine-protein kinase 2.7.11.1 0.771
4k33 ACPFibroblast growth factor receptor 3 2.7.10.1 0.769
1mq4 ADPAurora kinase A 2.7.11.1 0.767
2b9f ADPMitogen-activated protein kinase FUS3 2.7.11.24 0.767
4krc AGSCyclin-dependent protein kinase PHO85 2.7.11.22 0.766
4iai ADPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.765
4utd ACPAurora kinase A 2.7.11.1 0.765
2phk ATPPhosphorylase b kinase gamma catalytic chain, skeletal muscle/heart isoform 2.7.11.19 0.763
4dn5 AGSMitogen-activated protein kinase kinase kinase 14 2.7.11.25 0.763
4ork GDPBifunctional AAC/APH 2.3.1 0.763
4wb6 ATPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.762
3fhi ANPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.761
2pml ANPUncharacterized protein / 0.758
5drd ATPAurora kinase A 2.7.11.1 0.758
1l8t ADPAminoglycoside 3'-phosphotransferase 2.7.1.95 0.757
4ej7 ATPAminoglycoside 3'-phosphotransferase AphA1-IAB / 0.757
4f9a ADPCell division cycle 7-related protein kinase 2.7.11.1 0.757
5awm ANPStress-activated protein kinase JNK 2.7.11.24 0.757
2b0q ADPAminoglycoside 3'-phosphotransferase 2.7.1.95 0.756
1cdk ANPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.754
1j7l ADPAminoglycoside 3'-phosphotransferase 2.7.1.95 0.753
4xw6 ADPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.753
4iak ADPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.752
4qny ANPMitogen activated protein kinase, putative / 0.752
3x2w ATPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.751
4iaz ADPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.751
4ysj ADPCalmodulin-like domain protein kinase / 0.750
4dg3 ANPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.748
3c4z ADPRhodopsin kinase / 0.746
4xw4 ANPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.746
5cvh ADPCasein kinase II subunit alpha 2.7.11.1 0.746
5dos ATPAurora kinase A 2.7.11.1 0.745
3akk ADPSerine/threonine-protein kinase CtkA 2.7.11.1 0.744
3rv4 ADPBiotin carboxylase 6.3.4.14 0.743
5ckw ANPUncharacterized protein / 0.743
2vqd AP2Biotin carboxylase 6.3.4.14 0.742
3tm0 ANPAminoglycoside 3'-phosphotransferase 2.7.1.95 0.741
4ekk ANPRAC-alpha serine/threonine-protein kinase 2.7.11.1 0.741
3fjq ATPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.740
4iay ADPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.740
5dmz ADPMitotic checkpoint serine/threonine-protein kinase BUB1 2.7.11.1 0.740
1zth ADPRIO-type serine/threonine-protein kinase Rio1 2.7.11.1 0.738
2olc ADPMethylthioribose kinase 2.7.1.100 0.737
4ffr ATPUncharacterized protein / 0.737
5dt3 ATPAurora kinase A 2.7.11.1 0.736
1z2p ACPInositol-tetrakisphosphate 1-kinase 2.7.1.134 0.735
4ifc ADPSerine/threonine-protein kinase PRP4 homolog 2.7.11.1 0.735
4lfi GNPCasein kinase II subunit alpha 2.7.11.1 0.735
1a9x ADPCarbamoyl-phosphate synthase large chain / 0.734
3x2v ATPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.733
4iac ACPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.732
2qcs ANPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.731
3niz ADPCdc2-like CDK2/CDC28 like protein kinase / 0.730
3vpb ADPGlutamate--LysW ligase ArgX 6.3.2 0.730
4o1p ANPRibonuclease L / 0.729
5dn3 ATPAurora kinase A 2.7.11.1 0.729
5eg3 ACPFibroblast growth factor receptor 2 / 0.729
1o6y ACPSerine/threonine-protein kinase PknB 2.7.11.1 0.728
3o7l ANPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.728
3qc9 ADPRhodopsin kinase / 0.728
3wo0 ADPAlanine--anticapsin ligase / 0.728
2pup ADPMethylthioribose kinase 2.7.1.100 0.727
4xw5 ATPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.726
5iqf GDPBifunctional AAC/APH 2.3.1 0.726
4f99 ADPCell division cycle 7-related protein kinase 2.7.11.1 0.725
1m0w ANPGlutathione synthetase 6.3.2.3 0.723
2rio ADPSerine/threonine-protein kinase/endoribonuclease IRE1 2.7.11.1 0.723
2w4k ADPDeath-associated protein kinase 1 2.7.11.1 0.722
3nsz ANPCasein kinase II subunit alpha 2.7.11.1 0.722
4nzo ANPInositol hexakisphosphate and diphosphoinositol-pentakisphosphate kinase 2 / 0.722
1q24 ATPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.721
5dnr ATPAurora kinase A 2.7.11.1 0.721
5iqh GNPBifunctional AAC/APH 2.3.1 0.721
1jkk ANPDeath-associated protein kinase 1 2.7.11.1 0.720
2w4j ADPDeath-associated protein kinase 1 2.7.11.1 0.720
3wnz ADPAlanine--anticapsin ligase / 0.719
2b9i ADPMitogen-activated protein kinase FUS3 2.7.11.24 0.718
3t99 ADPInositol hexakisphosphate and diphosphoinositol-pentakisphosphate kinase 2 / 0.718
3t9a ANPInositol hexakisphosphate and diphosphoinositol-pentakisphosphate kinase 2 / 0.716
5iqb GNPBifunctional AAC/APH 2.3.1 0.716
3t9e ADPInositol hexakisphosphate and diphosphoinositol-pentakisphosphate kinase 2 / 0.715
4wbb ADPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.714
5dt4 ATPAurora kinase A 2.7.11.1 0.714
1xr1 ANPSerine/threonine-protein kinase pim-1 2.7.11.1 0.713
1z2n ADPInositol-tetrakisphosphate 1-kinase 2.7.1.134 0.713
4x6r ATPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.713
1ol7 ADPAurora kinase A 2.7.11.1 0.712
3t9f ADPInositol hexakisphosphate and diphosphoinositol-pentakisphosphate kinase 2 / 0.711
1cm8 ANPMitogen-activated protein kinase 12 / 0.710
1ig1 ANPDeath-associated protein kinase 1 2.7.11.1 0.710
2io9 ADPBifunctional glutathionylspermidine synthetase/amidase / 0.710
4n57 ADPAPH(2'')-Id / 0.710
4o4d ATPKinase / 0.710
2xuu ADPDeath-associated protein kinase 1 2.7.11.1 0.708
3x2u ATPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.708
3idb ANPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.707
4fu0 ADPD-alanine--D-alanine ligase / 0.705
4jqe ANPCasein kinase II subunit alpha 2.7.11.1 0.704
4ocp ADPN-acetylhexosamine 1-kinase 2.7.1.162 0.704
1j7u ANPAminoglycoside 3'-phosphotransferase 2.7.1.95 0.702
4wh2 ADPN-acetylhexosamine 1-kinase 2.7.1.162 0.701
2dwb ANPAurora kinase A 2.7.11.1 0.700
2xrw ANPMitogen-activated protein kinase 8 2.7.11.24 0.700
4fhp UTPTerminal uridylyltransferase cid1 / 0.700
4gyi ADPUncharacterized protein / 0.700
4nm0 ADPGlycogen synthase kinase-3 beta 2.7.11.26 0.700
4bn1 ADPAurora kinase A 2.7.11.1 0.699
4fmq ANPMitogen-activated protein kinase 1 2.7.11.24 0.699
2pui ADPMethylthioribose kinase 2.7.1.100 0.697
4dh7 ANPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.697
4ic7 ANPMitogen-activated protein kinase 7 2.7.11.24 0.697
4fl1 ANPTyrosine-protein kinase SYK 2.7.10.2 0.696
2pvr ANPCasein kinase II subunit alpha 2.7.11.1 0.695
4nif ANPMitogen-activated protein kinase 1 2.7.11.24 0.695
3t8o ATPRhodopsin kinase / 0.692
4aw1 ATP3-phosphoinositide-dependent protein kinase 1 2.7.11.1 0.690
1jbp ADPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.689
2j9g ADPBiotin carboxylase 6.3.4.14 0.689
2hen ADPEphrin type-B receptor 2 2.7.10.1 0.688
3c50 ADPRhodopsin kinase / 0.688
3gu7 ADPDeath-associated protein kinase 1 2.7.11.1 0.688
2pun ACPMethylthioribose kinase 2.7.1.100 0.687
4lv8 ADPRhoptry protein 5 C / 0.686
4otp ADPSerine/threonine-protein kinase RIO1 2.7.11.1 0.686
2bkk ADPAminoglycoside 3'-phosphotransferase 2.7.1.95 0.684
3tdv GDPGentamicin resistance protein / 0.683
5cvf ATPCasein kinase II subunit alpha 2.7.11.1 0.682
1w2d ADPInositol-trisphosphate 3-kinase A 2.7.1.127 0.679
2ijm ADPFocal adhesion kinase 1 2.7.10.2 0.678
2pul ACPMethylthioribose kinase 2.7.1.100 0.678
3w8q AGSDual specificity mitogen-activated protein kinase kinase 1 2.7.12.2 0.678
4gqt ADPHeat shock protein 90 / 0.678
5byl GCPBifunctional AAC/APH 2.3.1 0.677
1ol6 ATPAurora kinase A 2.7.11.1 0.676
1kp2 ATPArgininosuccinate synthase 6.3.4.5 0.675
3tdw GDPGentamicin resistance protein / 0.673
1j1b ANPGlycogen synthase kinase-3 beta 2.7.11.26 0.672
3dnt ATPSerine/threonine-protein kinase toxin HipA / 0.672
4ffm ADPUncharacterized protein / 0.672
1daw ANPCasein kinase II subunit alpha 2.7.11.1 0.671
1pkg ADPMast/stem cell growth factor receptor Kit 2.7.10.1 0.671
4ts7 ADPPurine phosphoribosyltransferase (GpT-1) / 0.671
4ux9 ANPMitogen-activated protein kinase 8 2.7.11.24 0.671
1b38 ATPCyclin-dependent kinase 2 2.7.11.22 0.670
1th8 ADPAnti-sigma F factor / 0.670
3g8d ADPBiotin carboxylase 6.3.4.14 0.670
4azw ATPO-antigen chain terminator bifunctional methyltransferase/kinase WbdD / 0.670
4btj ATPTau-tubulin kinase 1 2.7.11.1 0.669
4xcl AGSHeat shock cognate 90 kDa protein / 0.669
4xlv ACPInsulin receptor 2.7.10.1 0.669
1jkl ANPDeath-associated protein kinase 1 2.7.11.1 0.668
1q97 ATPSerine/threonine-protein kinase SKY1 2.7.11.1 0.668
2j0l ANPFocal adhesion kinase 1 2.7.10.2 0.668
2pz5 ACPFibroblast growth factor receptor 2 / 0.668
3q1k ADPD-alanine--D-alanine ligase A 6.3.2.4 0.668
4s33 ANPMitogen-activated protein kinase 1 2.7.11.24 0.668
1t36 ADPCarbamoyl-phosphate synthase large chain / 0.666
2cci ATPCyclin-dependent kinase 2 2.7.11.22 0.666
3f5u ANPDeath-associated protein kinase 1 2.7.11.1 0.666
1dv2 ATPBiotin carboxylase 6.3.4.14 0.665
2p5c SAHDiphthine synthase / 0.665
2p5f SAHDiphthine synthase / 0.665
2p6d SAHDiphthine synthase / 0.665
2pb6 SAHDiphthine synthase / 0.665
3dfc ANPDeath-associated protein kinase 1 2.7.11.1 0.665
3idc ANPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.665
4c5b ADPD-alanine--D-alanine ligase B 6.3.2.4 0.665
1u54 ACPActivated CDC42 kinase 1 / 0.664
2el3 SAHDiphthine synthase / 0.664
3hrf ATP3-phosphoinositide-dependent protein kinase 1 2.7.11.1 0.664
3mfs ANPPeripheral plasma membrane protein CASK 2.7.11.1 0.664
3t2s AGSHeat shock protein HSP 90-alpha / 0.664
2ior ADPChaperone protein HtpG / 0.663
2itv ANPEpidermal growth factor receptor 2.7.10.1 0.663
3g6w GTPUracil phosphoribosyltransferase 2.4.2.9 0.663
3wo1 ADPAlanine--anticapsin ligase / 0.663
4o0w ADNAurora kinase A 2.7.11.1 0.663
3g8c ADPBiotin carboxylase 6.3.4.14 0.662
4xc0 ACPHeat shock cognate 90 kDa protein / 0.662
4yhj AN2G protein-coupled receptor kinase 4 2.7.11.16 0.662
2b51 UTPRNA editing complex protein MP57 / 0.661
3a8w ATPProtein kinase C iota type 2.7.11.13 0.661
3otx AP5Adenosine kinase, putative / 0.661
4iir ANPSerine/threonine-protein kinase PRP4 homolog 2.7.11.1 0.661
4jr7 GNPCasein kinase II subunit alpha 2.7.11.1 0.661
2a19 ANPInterferon-induced, double-stranded RNA-activated protein kinase 2.7.11.1 0.660
2p0a ANPSynapsin-3 / 0.660
3a7h ATPSerine/threonine-protein kinase 24 2.7.11.1 0.660
3t54 ATPInositol hexakisphosphate and diphosphoinositol-pentakisphosphate kinase 2 / 0.660
4eoo ATPCyclin-dependent kinase 2 2.7.11.22 0.660
4jsy GTPMetallophosphoesterase / 0.659
1tqm ANPRIO-type serine/threonine-protein kinase Rio2 2.7.11.1 0.658
3ung ADPCRISPR system Cmr subunit Cmr2 / 0.658
4crs AGSSerine/threonine-protein kinase N2 2.7.11.13 0.658
2eva ADNMitogen-activated protein kinase kinase kinase 7 2.7.11.25 0.657
2y9q ANPMitogen-activated protein kinase 1 2.7.11.24 0.657
4eom ATPCyclin-dependent kinase 2 2.7.11.22 0.657
1zp9 ATPRIO-type serine/threonine-protein kinase Rio1 2.7.11.1 0.656
2fsn ADPArchaeal actin homolog / 0.656
2io7 ANPBifunctional glutathionylspermidine synthetase/amidase / 0.656
3i12 ADPD-alanine--D-alanine ligase A 6.3.2.4 0.656
3lct ADPALK tyrosine kinase receptor 2.7.10.1 0.656
4bfm ANPMaternal embryonic leucine zipper kinase 2.7.11.1 0.656
1ei1 ANPDNA gyrase subunit B / 0.655
1zar ADPRIO-type serine/threonine-protein kinase Rio2 2.7.11.1 0.655
3gu4 ANPDeath-associated protein kinase 1 2.7.11.1 0.655
1ss9 UPFLgtC / 0.654
2ejk SAHDiphthine synthase / 0.654
2yaa ATPDeath-associated protein kinase 2 / 0.654
1jnk ANPMitogen-activated protein kinase 10 2.7.11.24 0.653
3c4w ATPRhodopsin kinase / 0.653
3vpc ADPGlutamate--LysW ligase ArgX 6.3.2 0.653
4zgn ATPCell division cycle protein 123 / 0.653
1u5r ATPSerine/threonine-protein kinase TAO2 2.7.11.1 0.652
4c5c ATPD-alanine--D-alanine ligase B 6.3.2.4 0.652
2ioa ADPBifunctional glutathionylspermidine synthetase/amidase / 0.651
3udz ADPInositol-pentakisphosphate 2-kinase 2.7.1.158 0.651
1e79 ADPATP synthase subunit alpha, mitochondrial / 0.650
1e79 ADPATP synthase subunit beta, mitochondrial 3.6.3.14 0.650
4jrn ANPRhoptry kinase family protein / 0.650
4xcj ADPHeat shock cognate 90 kDa protein / 0.650