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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
2io7 ANP Bifunctional glutathionylspermidine synthetase/amidase

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
2io7 ANPBifunctional glutathionylspermidine synthetase/amidase / 1.268
2io8 ADPBifunctional glutathionylspermidine synthetase/amidase / 0.878
4ffr ATPUncharacterized protein / 0.871
4c5b ADPD-alanine--D-alanine ligase B 6.3.2.4 0.844
4nzo ANPInositol hexakisphosphate and diphosphoinositol-pentakisphosphate kinase 2 / 0.829
4c5c ATPD-alanine--D-alanine ligase B 6.3.2.4 0.812
1z2p ACPInositol-tetrakisphosphate 1-kinase 2.7.1.134 0.800
2p0a ANPSynapsin-3 / 0.796
1z2n ADPInositol-tetrakisphosphate 1-kinase 2.7.1.134 0.791
3t9e ADPInositol hexakisphosphate and diphosphoinositol-pentakisphosphate kinase 2 / 0.787
3t9f ADPInositol hexakisphosphate and diphosphoinositol-pentakisphosphate kinase 2 / 0.774
4ffl ADPUncharacterized protein / 0.774
2ioa ADPBifunctional glutathionylspermidine synthetase/amidase / 0.769
3vpb ADPGlutamate--LysW ligase ArgX 6.3.2 0.767
3k5h ATPPhosphoribosyl-aminoimidazole carboxylase / 0.766
3t9a ANPInositol hexakisphosphate and diphosphoinositol-pentakisphosphate kinase 2 / 0.761
4fi1 ATPCasein kinase II subunit alpha 2.7.11.1 0.761
4mwh ATPCasein kinase II subunit alpha 2.7.11.1 0.760
5c1p ADPD-alanine--D-alanine ligase / 0.754
2io9 ADPBifunctional glutathionylspermidine synthetase/amidase / 0.752
3t9d ANPInositol hexakisphosphate and diphosphoinositol-pentakisphosphate kinase 2 / 0.752
1cdk ANPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.740
1o6k ANPRAC-beta serine/threonine-protein kinase 2.7.11.1 0.737
4ekk ANPRAC-alpha serine/threonine-protein kinase 2.7.11.1 0.736
1phk ATPPhosphorylase b kinase gamma catalytic chain, skeletal muscle/heart isoform 2.7.11.19 0.734
5e92 ANPTGF-beta receptor type-2 2.7.11.30 0.732
4q4c ADPInositol hexakisphosphate and diphosphoinositol-pentakisphosphate kinase 2 / 0.726
1m0w ANPGlutathione synthetase 6.3.2.3 0.724
3q1k ADPD-alanine--D-alanine ligase A 6.3.2.4 0.722
4x6r ATPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.721
4uak ADPSerine/threonine-protein kinase MRCK beta 2.7.11.1 0.717
4ffm ADPUncharacterized protein / 0.716
3fhi ANPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.715
2r7n ADP5-formaminoimidazole-4-carboxamide-1-(beta)-D-ribofuranosyl 5'-monophosphate synthetase / 0.714
4dg3 ANPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.714
4iad ADPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.710
4gvj ADPNon-receptor tyrosine-protein kinase TYK2 2.7.10.2 0.709
4ysj ADPCalmodulin-like domain protein kinase / 0.707
1jnk ANPMitogen-activated protein kinase 10 2.7.11.24 0.704
3eth ATPN5-carboxyaminoimidazole ribonucleotide synthase / 0.704
2b9f ADPMitogen-activated protein kinase FUS3 2.7.11.24 0.702
3gu7 ADPDeath-associated protein kinase 1 2.7.11.1 0.702
4ii5 ADPCyclin-dependent kinase 2 2.7.11.22 0.701
1zar ADPRIO-type serine/threonine-protein kinase Rio2 2.7.11.1 0.700
1pk8 ATPSynapsin-1 / 0.699
3lla ACPMyosin heavy chain kinase A 2.7.11.7 0.699
2qcs ANPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.697
3g8d ADPBiotin carboxylase 6.3.4.14 0.697
3niz ADPCdc2-like CDK2/CDC28 like protein kinase / 0.695
3fjq ATPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.692
2hgs ADPGlutathione synthetase 6.3.2.3 0.691
3bu5 ATPInsulin receptor 2.7.10.1 0.690
3wo0 ADPAlanine--anticapsin ligase / 0.690
4zgn ATPCell division cycle protein 123 / 0.690
1aux AGSSynapsin-1 / 0.689
3r5f ATPD-alanine--D-alanine ligase / 0.687
3x2v ATPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.687
4jr7 GNPCasein kinase II subunit alpha 2.7.11.1 0.687
3tpt ADPSerine/threonine-protein kinase toxin HipA / 0.686
1cm8 ANPMitogen-activated protein kinase 12 / 0.685
3idc ANPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.685
4wb6 ATPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.685
1a9x ADPCarbamoyl-phosphate synthase large chain / 0.682
1px2 ATPSynapsin-1 / 0.680
3dnt ATPSerine/threonine-protein kinase toxin HipA / 0.680
2phk ATPPhosphorylase b kinase gamma catalytic chain, skeletal muscle/heart isoform 2.7.11.19 0.679
3wnz ADPAlanine--anticapsin ligase / 0.677
1daw ANPCasein kinase II subunit alpha 2.7.11.1 0.676
1j1c ADPGlycogen synthase kinase-3 beta 2.7.11.26 0.676
1jkl ANPDeath-associated protein kinase 1 2.7.11.1 0.676
2b9i ADPMitogen-activated protein kinase FUS3 2.7.11.24 0.676
4k33 ACPFibroblast growth factor receptor 3 2.7.10.1 0.676
3t54 ATPInositol hexakisphosphate and diphosphoinositol-pentakisphosphate kinase 2 / 0.675
4mam A12N5-carboxyaminoimidazole ribonucleotide synthase / 0.675
3ufx GDPSuccinate--CoA ligase [GDP-forming] subunit beta / 0.671
4dh7 ANPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.671
1day GNPCasein kinase II subunit alpha 2.7.11.1 0.670
1t36 ADPCarbamoyl-phosphate synthase large chain / 0.670
4zs4 ATPMyosin heavy chain kinase A 2.7.11.7 0.670
4ocp ADPN-acetylhexosamine 1-kinase 2.7.1.162 0.669
4qpm ADPMitotic checkpoint serine/threonine-protein kinase BUB1 2.7.11.1 0.669
4f9a ADPCell division cycle 7-related protein kinase 2.7.11.1 0.668
2b0q ADPAminoglycoside 3'-phosphotransferase 2.7.1.95 0.667
4r8q ADPMitotic checkpoint serine/threonine-protein kinase BUB1 2.7.11.1 0.667
3vpc ADPGlutamate--LysW ligase ArgX 6.3.2 0.665
1qmz ATPCyclin-dependent kinase 2 2.7.11.22 0.662
2w4j ADPDeath-associated protein kinase 1 2.7.11.1 0.662
3t99 ADPInositol hexakisphosphate and diphosphoinositol-pentakisphosphate kinase 2 / 0.662
4xw6 ADPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.661
1jkk ANPDeath-associated protein kinase 1 2.7.11.1 0.660
4iac ACPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.660
1l8t ADPAminoglycoside 3'-phosphotransferase 2.7.1.95 0.659
4r8h SP1cAMP-activated global transcriptional regulator CRP / 0.658
4xw5 ATPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.658
3rv4 ADPBiotin carboxylase 6.3.4.14 0.657
1zw5 ZOLFarnesyl pyrophosphate synthase 2.5.1.10 0.656
3udz ADPInositol-pentakisphosphate 2-kinase 2.7.1.158 0.656
4fmq ANPMitogen-activated protein kinase 1 2.7.11.24 0.656
4oau ADP2-5A-dependent ribonuclease 3.1.26 0.656
2hdj NDPAldo-keto reductase family 1 member C2 / 0.655
2xan ANPInositol-pentakisphosphate 2-kinase 2.7.1.158 0.654
4fl1 ANPTyrosine-protein kinase SYK 2.7.10.2 0.654
5drd ATPAurora kinase A 2.7.11.1 0.654
1dv2 ATPBiotin carboxylase 6.3.4.14 0.653
4i0a CMPcAMP-activated global transcriptional regulator CRP / 0.652
4i3z ADPCyclin-dependent kinase 2 2.7.11.22 0.652
3dl0 AP5Adenylate kinase / 0.651
3w8q AGSDual specificity mitogen-activated protein kinase kinase 1 2.7.12.2 0.651
3t7o UPGGlycogenin-1 2.4.1.186 0.650