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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
2pml ANP Uncharacterized protein

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
2pml ANPUncharacterized protein / 0.998
4xw5 ATPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.780
1phk ATPPhosphorylase b kinase gamma catalytic chain, skeletal muscle/heart isoform 2.7.11.19 0.768
5ce3 ADPProtein kinase YopO / 0.765
4f9a ADPCell division cycle 7-related protein kinase 2.7.11.1 0.761
4iaf ADPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.761
4oa9 ANPProtein BRASSINOSTEROID INSENSITIVE 1 2.7.10.1 0.758
4oau ADP2-5A-dependent ribonuclease 3.1.26 0.758
4iac ACPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.754
4iak ADPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.753
1q8y ADPSerine/threonine-protein kinase SKY1 2.7.11.1 0.749
2phk ATPPhosphorylase b kinase gamma catalytic chain, skeletal muscle/heart isoform 2.7.11.19 0.749
4dg3 ANPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.749
4xw4 ANPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.740
4iad ADPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.739
3x2v ATPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.734
3x2w ATPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.734
5cvf ATPCasein kinase II subunit alpha 2.7.11.1 0.734
4dh7 ANPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.733
4x6r ATPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.732
3o7l ANPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.729
1o6k ANPRAC-beta serine/threonine-protein kinase 2.7.11.1 0.724
4gvj ADPNon-receptor tyrosine-protein kinase TYK2 2.7.10.2 0.723
1lp4 ANPCasein kinase II subunit alpha 2.7.11.1 0.722
5eg3 ACPFibroblast growth factor receptor 2 / 0.721
3g8c ADPBiotin carboxylase 6.3.4.14 0.720
1pyx ANPGlycogen synthase kinase-3 beta 2.7.11.26 0.719
3x2u ATPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.719
4ux9 ANPMitogen-activated protein kinase 8 2.7.11.24 0.716
5dr2 ATPAurora kinase A 2.7.11.1 0.716
1zth ADPRIO-type serine/threonine-protein kinase Rio1 2.7.11.1 0.715
2qcs ANPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.712
3fjq ATPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.712
4f99 ADPCell division cycle 7-related protein kinase 2.7.11.1 0.712
4o1p ANPRibonuclease L / 0.708
5dn3 ATPAurora kinase A 2.7.11.1 0.708
2b9j ADPMitogen-activated protein kinase FUS3 2.7.11.24 0.707
5dt3 ATPAurora kinase A 2.7.11.1 0.706
2b9i ADPMitogen-activated protein kinase FUS3 2.7.11.24 0.705
3rv4 ADPBiotin carboxylase 6.3.4.14 0.704
4i3z ADPCyclin-dependent kinase 2 2.7.11.22 0.704
4uak ADPSerine/threonine-protein kinase MRCK beta 2.7.11.1 0.704
1jnk ANPMitogen-activated protein kinase 10 2.7.11.24 0.703
4ii5 ADPCyclin-dependent kinase 2 2.7.11.22 0.703
3idb ANPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.702
4ej7 ATPAminoglycoside 3'-phosphotransferase AphA1-IAB / 0.702
4krc AGSCyclin-dependent protein kinase PHO85 2.7.11.22 0.699
4bn1 ADPAurora kinase A 2.7.11.1 0.698
1id0 ANPSensor protein PhoQ 2.7.13.3 0.697
2itn ANPEpidermal growth factor receptor 2.7.10.1 0.697
3vjn ANPEpidermal growth factor receptor 2.7.10.1 0.697
4dh3 ATPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.697
1xr1 ANPSerine/threonine-protein kinase pim-1 2.7.11.1 0.695
4dee ADPAurora kinase A 2.7.11.1 0.695
4ifc ADPSerine/threonine-protein kinase PRP4 homolog 2.7.11.1 0.694
4xlv ACPInsulin receptor 2.7.10.1 0.694
2zdg ADPD-alanine--D-alanine ligase / 0.693
4axf ANPInositol-pentakisphosphate 2-kinase 2.7.1.158 0.692
1daw ANPCasein kinase II subunit alpha 2.7.11.1 0.691
1csn ATPCasein kinase I homolog 1 2.7.11.1 0.690
1jbp ADPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.690
4h3q ANPMitogen-activated protein kinase 1 2.7.11.24 0.690
1j1c ADPGlycogen synthase kinase-3 beta 2.7.11.26 0.689
3fhi ANPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.689
4iir ANPSerine/threonine-protein kinase PRP4 homolog 2.7.11.1 0.689
4oav ACP2-5A-dependent ribonuclease 3.1.26 0.688
2pvr ANPCasein kinase II subunit alpha 2.7.11.1 0.687
3niz ADPCdc2-like CDK2/CDC28 like protein kinase / 0.687
2b9f ADPMitogen-activated protein kinase FUS3 2.7.11.24 0.686
4nm7 ADPGlycogen synthase kinase-3 beta 2.7.11.26 0.686
4uya AGSMitogen-activated protein kinase kinase kinase 21 2.7.11.25 0.686
1cdk ANPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.685
4ceg ADPAurora kinase A 2.7.11.1 0.685
4dh5 ADPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.685
3lmh ADPMyosin heavy chain kinase A 2.7.11.7 0.684
4fl1 ANPTyrosine-protein kinase SYK 2.7.10.2 0.684
3vjo ANPEpidermal growth factor receptor 2.7.10.1 0.683
3i12 ADPD-alanine--D-alanine ligase A 6.3.2.4 0.682
4ib3 ADPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.682
2pup ADPMethylthioribose kinase 2.7.1.100 0.680
4crs AGSSerine/threonine-protein kinase N2 2.7.11.13 0.680
4otp ADPSerine/threonine-protein kinase RIO1 2.7.11.1 0.679
4zgn ATPCell division cycle protein 123 / 0.677
3mia ANPCyclin-dependent kinase 9 2.7.11.22 0.676
4lfi GNPCasein kinase II subunit alpha 2.7.11.1 0.676
1ol7 ADPAurora kinase A 2.7.11.1 0.675
1u5r ATPSerine/threonine-protein kinase TAO2 2.7.11.1 0.675
2pul ACPMethylthioribose kinase 2.7.1.100 0.675
2y9q ANPMitogen-activated protein kinase 1 2.7.11.24 0.674
4s33 ANPMitogen-activated protein kinase 1 2.7.11.24 0.674
2hen ADPEphrin type-B receptor 2 2.7.10.1 0.672
2pz5 ACPFibroblast growth factor receptor 2 / 0.672
1o6y ACPSerine/threonine-protein kinase PknB 2.7.11.1 0.671
2pui ADPMethylthioribose kinase 2.7.1.100 0.671
2py3 ACPFibroblast growth factor receptor 2 / 0.671
1w2d ADPInositol-trisphosphate 3-kinase A 2.7.1.127 0.670
2ioa ADPBifunctional glutathionylspermidine synthetase/amidase / 0.670
4eoo ATPCyclin-dependent kinase 2 2.7.11.22 0.669
4nm5 ADPGlycogen synthase kinase-3 beta 2.7.11.26 0.669
1tqm ANPRIO-type serine/threonine-protein kinase Rio2 2.7.11.1 0.668
2w4j ADPDeath-associated protein kinase 1 2.7.11.1 0.668
3gu5 ANPDeath-associated protein kinase 1 2.7.11.1 0.668
4dn5 AGSMitogen-activated protein kinase kinase kinase 14 2.7.11.25 0.668
2cci ATPCyclin-dependent kinase 2 2.7.11.22 0.666
2pb4 SAHDiphthine synthase / 0.666
3tw6 ADPPyruvate carboxylase / 0.666
4iay ADPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.666
2b0q ADPAminoglycoside 3'-phosphotransferase 2.7.1.95 0.664
3cly ACPFibroblast growth factor receptor 2 / 0.664
3t9e ADPInositol hexakisphosphate and diphosphoinositol-pentakisphosphate kinase 2 / 0.664
4bfm ANPMaternal embryonic leucine zipper kinase 2.7.11.1 0.664
4fi1 ATPCasein kinase II subunit alpha 2.7.11.1 0.664
4mwh ATPCasein kinase II subunit alpha 2.7.11.1 0.664
1a9x ADPCarbamoyl-phosphate synthase large chain / 0.663
3t9f ADPInositol hexakisphosphate and diphosphoinositol-pentakisphosphate kinase 2 / 0.663
4aqk ADPInositol-pentakisphosphate 2-kinase 2.7.1.158 0.663
3oij SAHRibosomal RNA small subunit methyltransferase NEP1 / 0.662
4btj ATPTau-tubulin kinase 1 2.7.11.1 0.662
4ekk ANPRAC-alpha serine/threonine-protein kinase 2.7.11.1 0.662
4q5h ANPProtein kinase OspG 2.7 0.662
2zoq 5IDMitogen-activated protein kinase 3 2.7.11.24 0.661
1u54 ACPActivated CDC42 kinase 1 / 0.660
2pun ACPMethylthioribose kinase 2.7.1.100 0.660
3dnt ATPSerine/threonine-protein kinase toxin HipA / 0.660
4jr7 GNPCasein kinase II subunit alpha 2.7.11.1 0.660
4oac ADPProtein BRASSINOSTEROID INSENSITIVE 1 2.7.10.1 0.660
4bl1 ANPMaternal embryonic leucine zipper kinase 2.7.11.1 0.659
4ocp ADPN-acetylhexosamine 1-kinase 2.7.1.162 0.659
2p0a ANPSynapsin-3 / 0.658
3oii SAHRibosomal RNA small subunit methyltransferase NEP1 / 0.658
3t54 ATPInositol hexakisphosphate and diphosphoinositol-pentakisphosphate kinase 2 / 0.658
4hpt ANPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.658
4q5j ANPProtein BRASSINOSTEROID INSENSITIVE 1 2.7.10.1 0.658
4c5b ADPD-alanine--D-alanine ligase B 6.3.2.4 0.657
4fl3 ANPTyrosine-protein kinase SYK 2.7.10.2 0.657
1ir3 ANPInsulin receptor 2.7.10.1 0.656
1zp9 ATPRIO-type serine/threonine-protein kinase Rio1 2.7.11.1 0.656
2pzp ACPFibroblast growth factor receptor 2 / 0.656
3dfc ANPDeath-associated protein kinase 1 2.7.11.1 0.656
4nif ANPMitogen-activated protein kinase 1 2.7.11.24 0.656
1mru AGSSerine/threonine-protein kinase PknB 2.7.11.1 0.655
2j9g ADPBiotin carboxylase 6.3.4.14 0.655
2olc ADPMethylthioribose kinase 2.7.1.100 0.655
2x86 ADPADP-L-glycero-D-manno-heptose-6-epimerase / 0.655
3lmi ATPMyosin heavy chain kinase A 2.7.11.7 0.654
4utd ACPAurora kinase A 2.7.11.1 0.654
3dys 5GPHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A / 0.653
2p6d SAHDiphthine synthase / 0.652
4ffr ATPUncharacterized protein / 0.652
2xrw ANPMitogen-activated protein kinase 8 2.7.11.24 0.651
4qny ANPMitogen activated protein kinase, putative / 0.651
5drd ATPAurora kinase A 2.7.11.1 0.650