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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
4ffm ADP Uncharacterized protein

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
4ffm ADPUncharacterized protein / 1.047
4ffl ADPUncharacterized protein / 0.905
4ffr ATPUncharacterized protein / 0.881
3wnz ADPAlanine--anticapsin ligase / 0.798
2io9 ADPBifunctional glutathionylspermidine synthetase/amidase / 0.785
1z2p ACPInositol-tetrakisphosphate 1-kinase 2.7.1.134 0.779
3t99 ADPInositol hexakisphosphate and diphosphoinositol-pentakisphosphate kinase 2 / 0.779
4c5b ADPD-alanine--D-alanine ligase B 6.3.2.4 0.774
1z2n ADPInositol-tetrakisphosphate 1-kinase 2.7.1.134 0.763
1px2 ATPSynapsin-1 / 0.759
2p0a ANPSynapsin-3 / 0.759
3t9e ADPInositol hexakisphosphate and diphosphoinositol-pentakisphosphate kinase 2 / 0.758
2r7n ADP5-formaminoimidazole-4-carboxamide-1-(beta)-D-ribofuranosyl 5'-monophosphate synthetase / 0.754
3q1k ADPD-alanine--D-alanine ligase A 6.3.2.4 0.747
3t9f ADPInositol hexakisphosphate and diphosphoinositol-pentakisphosphate kinase 2 / 0.746
3wo0 ADPAlanine--anticapsin ligase / 0.743
4q4c ADPInositol hexakisphosphate and diphosphoinositol-pentakisphosphate kinase 2 / 0.742
1iah ADPTransient receptor potential cation channel subfamily M member 7 2.7.11.1 0.741
5c1p ADPD-alanine--D-alanine ligase / 0.734
2io8 ADPBifunctional glutathionylspermidine synthetase/amidase / 0.733
3i12 ADPD-alanine--D-alanine ligase A 6.3.2.4 0.730
3r5f ATPD-alanine--D-alanine ligase / 0.726
5c1o ANPD-alanine--D-alanine ligase / 0.725
2ioa ADPBifunctional glutathionylspermidine synthetase/amidase / 0.720
3rv4 ADPBiotin carboxylase 6.3.4.14 0.719
3g8d ADPBiotin carboxylase 6.3.4.14 0.717
2io7 ANPBifunctional glutathionylspermidine synthetase/amidase / 0.716
4oav ACP2-5A-dependent ribonuclease 3.1.26 0.708
1zar ADPRIO-type serine/threonine-protein kinase Rio2 2.7.11.1 0.707
4c5c ATPD-alanine--D-alanine ligase B 6.3.2.4 0.707
5e9e ANPMyosin heavy chain kinase A 2.7.11.7 0.706
3tw6 ADPPyruvate carboxylase / 0.705
3vpc ADPGlutamate--LysW ligase ArgX 6.3.2 0.703
1m0w ANPGlutathione synthetase 6.3.2.3 0.702
3eth ATPN5-carboxyaminoimidazole ribonucleotide synthase / 0.701
4gvj ADPNon-receptor tyrosine-protein kinase TYK2 2.7.10.2 0.701
3eps ATPIsocitrate dehydrogenase kinase/phosphatase / 0.700
4uak ADPSerine/threonine-protein kinase MRCK beta 2.7.11.1 0.700
5jqw ADPN5-carboxyaminoimidazole ribonucleotide synthase / 0.700
3t9a ANPInositol hexakisphosphate and diphosphoinositol-pentakisphosphate kinase 2 / 0.699
2zdg ADPD-alanine--D-alanine ligase / 0.698
4fu0 ADPD-alanine--D-alanine ligase / 0.698
3lmh ADPMyosin heavy chain kinase A 2.7.11.7 0.689
1ia9 ANPTransient receptor potential cation channel subfamily M member 7 2.7.11.1 0.687
4wh2 ADPN-acetylhexosamine 1-kinase 2.7.1.162 0.686
1zao ATPRIO-type serine/threonine-protein kinase Rio2 2.7.11.1 0.685
2b9f ADPMitogen-activated protein kinase FUS3 2.7.11.24 0.684
2pui ADPMethylthioribose kinase 2.7.1.100 0.684
2r86 ATP5-formaminoimidazole-4-carboxamide-1-(beta)-D-ribofuranosyl 5'-monophosphate synthetase / 0.684
2j9g ADPBiotin carboxylase 6.3.4.14 0.683
3lmi ATPMyosin heavy chain kinase A 2.7.11.7 0.683
4xlv ACPInsulin receptor 2.7.10.1 0.683
1zth ADPRIO-type serine/threonine-protein kinase Rio1 2.7.11.1 0.682
2pyw ADPMethylthioribose kinase 2.7.1.100 0.682
3vpb ADPGlutamate--LysW ligase ArgX 6.3.2 0.682
4iad ADPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.682
1o6y ACPSerine/threonine-protein kinase PknB 2.7.11.1 0.681
4dee ADPAurora kinase A 2.7.11.1 0.680
4zme ADNMyosin heavy chain kinase A 2.7.11.7 0.680
1j7l ADPAminoglycoside 3'-phosphotransferase 2.7.1.95 0.679
2vqd AP2Biotin carboxylase 6.3.4.14 0.679
1mqb ANPEphrin type-A receptor 2 2.7.10.1 0.678
2xuu ADPDeath-associated protein kinase 1 2.7.11.1 0.678
3dnt ATPSerine/threonine-protein kinase toxin HipA / 0.677
5awm ANPStress-activated protein kinase JNK 2.7.11.24 0.676
1l8t ADPAminoglycoside 3'-phosphotransferase 2.7.1.95 0.675
1pk8 ATPSynapsin-1 / 0.674
2b9j ADPMitogen-activated protein kinase FUS3 2.7.11.24 0.674
3lla ACPMyosin heavy chain kinase A 2.7.11.7 0.674
1ig1 ANPDeath-associated protein kinase 1 2.7.11.1 0.673
5iqe GNPBifunctional AAC/APH 2.3.1 0.673
3gu7 ADPDeath-associated protein kinase 1 2.7.11.1 0.672
4oau ADP2-5A-dependent ribonuclease 3.1.26 0.672
4utd ACPAurora kinase A 2.7.11.1 0.671
5iqd GNPBifunctional AAC/APH 2.3.1 0.671
3k5h ATPPhosphoribosyl-aminoimidazole carboxylase / 0.670
4f99 ADPCell division cycle 7-related protein kinase 2.7.11.1 0.670
5iqa GNPBifunctional AAC/APH 2.3.1 0.669
3cly ACPFibroblast growth factor receptor 2 / 0.667
4iwx ADPRibosomal protein S6--L-glutamate ligase / 0.667
4mam A12N5-carboxyaminoimidazole ribonucleotide synthase / 0.667
4mv3 ACPBiotin carboxylase 6.3.4.14 0.667
5iqb GNPBifunctional AAC/APH 2.3.1 0.667
1lp4 ANPCasein kinase II subunit alpha 2.7.11.1 0.665
1t36 ADPCarbamoyl-phosphate synthase large chain / 0.665
1aux AGSSynapsin-1 / 0.664
2b0q ADPAminoglycoside 3'-phosphotransferase 2.7.1.95 0.664
4nzo ANPInositol hexakisphosphate and diphosphoinositol-pentakisphosphate kinase 2 / 0.664
4h3q ANPMitogen-activated protein kinase 1 2.7.11.24 0.663
4iwy ADPRibosomal protein S6--L-glutamate ligase / 0.663
4zs4 ATPMyosin heavy chain kinase A 2.7.11.7 0.663
5iqi GNPBifunctional AAC/APH 2.3.1 0.663
3tpt ADPSerine/threonine-protein kinase toxin HipA / 0.662
4i0b CMPcAMP-activated global transcriptional regulator CRP / 0.662
4nm5 ADPGlycogen synthase kinase-3 beta 2.7.11.26 0.662
4qny ANPMitogen activated protein kinase, putative / 0.662
1tqp ATPRIO-type serine/threonine-protein kinase Rio2 2.7.11.1 0.661
2pun ACPMethylthioribose kinase 2.7.1.100 0.661
3pff ADPATP-citrate synthase 2.3.3.8 0.661
4k33 ACPFibroblast growth factor receptor 3 2.7.10.1 0.661
2hgs ADPGlutathione synthetase 6.3.2.3 0.660
4otp ADPSerine/threonine-protein kinase RIO1 2.7.11.1 0.660
3ung ADPCRISPR system Cmr subunit Cmr2 / 0.659
4uxx ACPDiacylglycerol kinase 2.7.1.107 0.659
5dn3 ATPAurora kinase A 2.7.11.1 0.659
5ce3 ADPProtein kinase YopO / 0.658
4gyi ADPUncharacterized protein / 0.657
4krc AGSCyclin-dependent protein kinase PHO85 2.7.11.22 0.657
4s34 ANPMitogen-activated protein kinase 1 2.7.11.24 0.657
5cvh ADPCasein kinase II subunit alpha 2.7.11.1 0.657
2hen ADPEphrin type-B receptor 2 2.7.10.1 0.656
2olc ADPMethylthioribose kinase 2.7.1.100 0.656
2w4j ADPDeath-associated protein kinase 1 2.7.11.1 0.656
3dqw AGSProto-oncogene tyrosine-protein kinase Src 2.7.10.2 0.656
3pdt ADPMyosin heavy chain kinase A 2.7.11.7 0.656
2cx8 SAHRibosomal RNA small subunit methyltransferase E / 0.655
5dos ATPAurora kinase A 2.7.11.1 0.655
5e92 ANPTGF-beta receptor type-2 2.7.11.30 0.655
1ol5 ADPAurora kinase A 2.7.11.1 0.654
3niz ADPCdc2-like CDK2/CDC28 like protein kinase / 0.654
3x2w ATPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.654
3f5u ANPDeath-associated protein kinase 1 2.7.11.1 0.653
1ir3 ANPInsulin receptor 2.7.10.1 0.652
1ol6 ATPAurora kinase A 2.7.11.1 0.652
2egw SAHRibosomal RNA small subunit methyltransferase E 2.1.1.193 0.652
3ufx GDPSuccinate--CoA ligase [GDP-forming] subunit beta / 0.652
4fl1 ANPTyrosine-protein kinase SYK 2.7.10.2 0.652
1v3s ATPSignaling protein / 0.651
1daw ANPCasein kinase II subunit alpha 2.7.11.1 0.650
2gq2 NAPFlavin-dependent thymidylate synthase 2.1.1.148 0.650
2j0l ANPFocal adhesion kinase 1 2.7.10.2 0.650
4r8h SP1cAMP-activated global transcriptional regulator CRP / 0.650