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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
3udz ADP Inositol-pentakisphosphate 2-kinase 2.7.1.158

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
3udz ADPInositol-pentakisphosphate 2-kinase 2.7.1.158 1.052
4lv7 ADPInositol-pentakisphosphate 2-kinase 2.7.1.158 0.832
2xan ANPInositol-pentakisphosphate 2-kinase 2.7.1.158 0.816
4axf ANPInositol-pentakisphosphate 2-kinase 2.7.1.158 0.812
3fjq ATPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.796
4wb6 ATPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.790
2b0q ADPAminoglycoside 3'-phosphotransferase 2.7.1.95 0.789
4oa9 ANPProtein BRASSINOSTEROID INSENSITIVE 1 2.7.10.1 0.770
3fhi ANPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.767
4nm5 ADPGlycogen synthase kinase-3 beta 2.7.11.26 0.763
2xuu ADPDeath-associated protein kinase 1 2.7.11.1 0.761
4dh3 ATPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.757
2pyw ADPMethylthioribose kinase 2.7.1.100 0.754
3tdv GDPGentamicin resistance protein / 0.750
4xw6 ADPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.750
4nif ANPMitogen-activated protein kinase 1 2.7.11.24 0.748
1o6k ANPRAC-beta serine/threonine-protein kinase 2.7.11.1 0.746
1cdk ANPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.744
4nm7 ADPGlycogen synthase kinase-3 beta 2.7.11.26 0.744
4h3q ANPMitogen-activated protein kinase 1 2.7.11.24 0.742
4krc AGSCyclin-dependent protein kinase PHO85 2.7.11.22 0.740
2qcs ANPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.739
1j1c ADPGlycogen synthase kinase-3 beta 2.7.11.26 0.736
3c4z ADPRhodopsin kinase / 0.736
4axd ANPInositol-pentakisphosphate 2-kinase 2.7.1.158 0.735
4ceg ADPAurora kinase A 2.7.11.1 0.735
4dh7 ANPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.735
3x2v ATPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.731
2phk ATPPhosphorylase b kinase gamma catalytic chain, skeletal muscle/heart isoform 2.7.11.19 0.729
2w4j ADPDeath-associated protein kinase 1 2.7.11.1 0.729
3x2w ATPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.729
3gu5 ANPDeath-associated protein kinase 1 2.7.11.1 0.725
5ce3 ADPProtein kinase YopO / 0.723
1ig1 ANPDeath-associated protein kinase 1 2.7.11.1 0.721
4aqk ADPInositol-pentakisphosphate 2-kinase 2.7.1.158 0.721
2w4k ADPDeath-associated protein kinase 1 2.7.11.1 0.720
4dee ADPAurora kinase A 2.7.11.1 0.719
2y9q ANPMitogen-activated protein kinase 1 2.7.11.24 0.718
3gu6 ADPDeath-associated protein kinase 1 2.7.11.1 0.718
4dn5 AGSMitogen-activated protein kinase kinase kinase 14 2.7.11.25 0.717
5dn3 ATPAurora kinase A 2.7.11.1 0.717
1jkk ANPDeath-associated protein kinase 1 2.7.11.1 0.716
3qc9 ADPRhodopsin kinase / 0.716
4fmq ANPMitogen-activated protein kinase 1 2.7.11.24 0.716
1mq4 ADPAurora kinase A 2.7.11.1 0.715
1q24 ATPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.715
4iak ADPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.715
1jkl ANPDeath-associated protein kinase 1 2.7.11.1 0.714
1zth ADPRIO-type serine/threonine-protein kinase Rio1 2.7.11.1 0.714
1j7u ANPAminoglycoside 3'-phosphotransferase 2.7.1.95 0.713
4f99 ADPCell division cycle 7-related protein kinase 2.7.11.1 0.713
4lfi GNPCasein kinase II subunit alpha 2.7.11.1 0.712
4oav ACP2-5A-dependent ribonuclease 3.1.26 0.712
3gu7 ADPDeath-associated protein kinase 1 2.7.11.1 0.711
1pyx ANPGlycogen synthase kinase-3 beta 2.7.11.26 0.710
3f5u ANPDeath-associated protein kinase 1 2.7.11.1 0.709
3tm0 ANPAminoglycoside 3'-phosphotransferase 2.7.1.95 0.708
2pui ADPMethylthioribose kinase 2.7.1.100 0.707
3t8o ATPRhodopsin kinase / 0.707
3c50 ADPRhodopsin kinase / 0.705
4uak ADPSerine/threonine-protein kinase MRCK beta 2.7.11.1 0.703
3c4w ATPRhodopsin kinase / 0.702
4f9a ADPCell division cycle 7-related protein kinase 2.7.11.1 0.702
4ocp ADPN-acetylhexosamine 1-kinase 2.7.1.162 0.702
5dr2 ATPAurora kinase A 2.7.11.1 0.701
3idc ANPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.700
4iai ADPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.700
3dfc ANPDeath-associated protein kinase 1 2.7.11.1 0.699
2bkk ADPAminoglycoside 3'-phosphotransferase 2.7.1.95 0.698
3i12 ADPD-alanine--D-alanine ligase A 6.3.2.4 0.698
1o6y ACPSerine/threonine-protein kinase PknB 2.7.11.1 0.697
4c5b ADPD-alanine--D-alanine ligase B 6.3.2.4 0.697
5iqf GDPBifunctional AAC/APH 2.3.1 0.697
3gu4 ANPDeath-associated protein kinase 1 2.7.11.1 0.695
5dt3 ATPAurora kinase A 2.7.11.1 0.695
1mru AGSSerine/threonine-protein kinase PknB 2.7.11.1 0.692
2vuw 5IDSerine/threonine-protein kinase haspin 2.7.11.1 0.692
3att ATPPutative aminoglycoside phosphotransferase 2.7.1 0.691
4wh2 ADPN-acetylhexosamine 1-kinase 2.7.1.162 0.691
1l8t ADPAminoglycoside 3'-phosphotransferase 2.7.1.95 0.689
3idb ANPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.688
4dg3 ANPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.688
4fi1 ATPCasein kinase II subunit alpha 2.7.11.1 0.688
4hpt ANPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.688
4mwh ATPCasein kinase II subunit alpha 2.7.11.1 0.688
4o1p ANPRibonuclease L / 0.688
3tdw GDPGentamicin resistance protein / 0.686
4qny ANPMitogen activated protein kinase, putative / 0.686
4i3z ADPCyclin-dependent kinase 2 2.7.11.22 0.685
4iaf ADPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.685
4xw4 ANPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.685
5drd ATPAurora kinase A 2.7.11.1 0.684
2pul ACPMethylthioribose kinase 2.7.1.100 0.683
5e92 ANPTGF-beta receptor type-2 2.7.11.30 0.683
2pup ADPMethylthioribose kinase 2.7.1.100 0.682
4iad ADPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.682
4ifc ADPSerine/threonine-protein kinase PRP4 homolog 2.7.11.1 0.682
4nm0 ADPGlycogen synthase kinase-3 beta 2.7.11.26 0.682
4eoo ATPCyclin-dependent kinase 2 2.7.11.22 0.681
4xlv ACPInsulin receptor 2.7.10.1 0.681
5dos ATPAurora kinase A 2.7.11.1 0.680
4azw ATPO-antigen chain terminator bifunctional methyltransferase/kinase WbdD / 0.677
4fl1 ANPTyrosine-protein kinase SYK 2.7.10.2 0.677
1lp4 ANPCasein kinase II subunit alpha 2.7.11.1 0.676
3ori AGSSerine/threonine protein kinase / 0.676
3q1k ADPD-alanine--D-alanine ligase A 6.3.2.4 0.673
4ux9 ANPMitogen-activated protein kinase 8 2.7.11.24 0.673
4ysj ADPCalmodulin-like domain protein kinase / 0.673
1daw ANPCasein kinase II subunit alpha 2.7.11.1 0.672
2zdg ADPD-alanine--D-alanine ligase / 0.670
3g51 ANPRibosomal protein S6 kinase alpha-3 2.7.11.1 0.669
3nie ANPMitogen-activated protein kinase / 0.668
4r1l ADPPhenylacetate-coenzyme A ligase / 0.668
1jnk ANPMitogen-activated protein kinase 10 2.7.11.24 0.667
3lla ACPMyosin heavy chain kinase A 2.7.11.7 0.667
4n57 ADPAPH(2'')-Id / 0.667
4ock ANPN-acetylhexosamine 1-kinase 2.7.1.162 0.667
4xw5 ATPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.667
3x2u ATPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.666
5dnr ATPAurora kinase A 2.7.11.1 0.665
2b9j ADPMitogen-activated protein kinase FUS3 2.7.11.24 0.664
3t9e ADPInositol hexakisphosphate and diphosphoinositol-pentakisphosphate kinase 2 / 0.664
4x6r ATPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.664
5dt4 ATPAurora kinase A 2.7.11.1 0.664
1m0w ANPGlutathione synthetase 6.3.2.3 0.663
1z2n ADPInositol-tetrakisphosphate 1-kinase 2.7.1.134 0.663
4q4c ADPInositol hexakisphosphate and diphosphoinositol-pentakisphosphate kinase 2 / 0.663
4qpm ADPMitotic checkpoint serine/threonine-protein kinase BUB1 2.7.11.1 0.663
4gvj ADPNon-receptor tyrosine-protein kinase TYK2 2.7.10.2 0.662
2b9f ADPMitogen-activated protein kinase FUS3 2.7.11.24 0.661
4crs AGSSerine/threonine-protein kinase N2 2.7.11.13 0.661
4iir ANPSerine/threonine-protein kinase PRP4 homolog 2.7.11.1 0.661
1j1b ANPGlycogen synthase kinase-3 beta 2.7.11.26 0.660
3lmi ATPMyosin heavy chain kinase A 2.7.11.7 0.660
5iqb GNPBifunctional AAC/APH 2.3.1 0.658
1q8y ADPSerine/threonine-protein kinase SKY1 2.7.11.1 0.657
2py3 ACPFibroblast growth factor receptor 2 / 0.657
2rio ADPSerine/threonine-protein kinase/endoribonuclease IRE1 2.7.11.1 0.657
4c3r ACPAurora kinase A 2.7.11.1 0.657
4q5h ANPProtein kinase OspG 2.7 0.657
4utd ACPAurora kinase A 2.7.11.1 0.657
2io7 ANPBifunctional glutathionylspermidine synthetase/amidase / 0.656
4y0x ADPSerine/threonine-protein kinase PknG 2.7.11.1 0.656
5eg3 ACPFibroblast growth factor receptor 2 / 0.656
1e79 ADPATP synthase subunit alpha, mitochondrial / 0.655
1e79 ADPATP synthase subunit beta, mitochondrial 3.6.3.14 0.655
4bn1 ADPAurora kinase A 2.7.11.1 0.655
4r8q ADPMitotic checkpoint serine/threonine-protein kinase BUB1 2.7.11.1 0.655
3mfs ANPPeripheral plasma membrane protein CASK 2.7.11.1 0.654
4ii5 ADPCyclin-dependent kinase 2 2.7.11.22 0.654
1csn ATPCasein kinase I homolog 1 2.7.11.1 0.653
3c4x ATPRhodopsin kinase / 0.653
3w8q AGSDual specificity mitogen-activated protein kinase kinase 1 2.7.12.2 0.653
4ffl ADPUncharacterized protein / 0.653
1bmf ADPATP synthase subunit alpha, mitochondrial / 0.652
1bmf ADPATP synthase subunit beta, mitochondrial 3.6.3.14 0.652
2b9i ADPMitogen-activated protein kinase FUS3 2.7.11.24 0.652
4ffr ATPUncharacterized protein / 0.651
4oau ADP2-5A-dependent ribonuclease 3.1.26 0.651
3llt ANPProtein serine/threonine kinase-1 / 0.650