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sc-PDB

An Annotated Database of Druggable Binding Sites from the Protein DataBank

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Distribution of Binding site similarity measured by Shaper
You can zoom onto the graph by using the mouse to make a selection

Binding Sites are compared using Shaper.
For more information, please see the following publication: Desaphy J. et al. Comparison and Druggability Prediction of protein-Ligand Binding sites from pharmacophore-annotated cavity shapes J. Chem. Inf. Model., 2012, 52(8), pp2287-2299
Binding Sites are considered as similar when the similarity value is greater than 0.44

Reference Protein Data Bank Entry :
PDB IDHETUniprot NameEC Number
5c8wPCGcGMP-dependent protein kinase 22.7.11.12

Complex with similar binding sites

PDB ID HET Uniprot Name EC Number Binding Site
Similarity		 Align
5c8wPCGcGMP-dependent protein kinase 22.7.11.121.000
3ocpCMPcGMP-dependent protein kinase 12.7.11.120.497
5c6cCMPcGMP-dependent protein kinase 22.7.11.120.495
4n9iPCGCatabolite expression activator/0.484
1bygSTUTyrosine-protein kinase CSK/0.483
3zewSTUEphrin type-B receptor 42.7.10.10.479
1mp0NADAlcohol dehydrogenase class-31.1.1.10.476
4kzoNAPIsocitrate dehydrogenase [NADP] cytoplasmic1.1.1.420.471
4y95746Tyrosine-protein kinase/0.471
3ssnMVIMycinamicin VI 2''-O-methyltransferase/0.470
1kbqFADNAD(P)H dehydrogenase [quinone] 11.6.5.20.468
1k6tXN1Gag-Pol polyprotein3.4.23.160.467
2b7aIZATyrosine-protein kinase JAK2/0.466
2bdf24AProto-oncogene tyrosine-protein kinase Src2.7.10.20.466
2cf6NAPCinnamyl alcohol dehydrogenase 51.1.1.1950.465
2dq7STUTyrosine-protein kinase Fyn2.7.10.20.465
3a4oSTUTyrosine-protein kinase Lyn2.7.10.20.465
4dymIYZActivin receptor type-12.7.11.300.464
4y93746Tyrosine-protein kinase/0.463
4bf2STUMitogen-activated protein kinase kinase kinase 52.7.11.250.462
1bw9NADPhenylalanine dehydrogenase/0.461
3kjrNAPBifunctional dihydrofolate reductase-thymidylate synthase/0.460
4dbzNDPPutative ketoacyl reductase1.3.10.460
4ewn0VRImidazole glycerol phosphate synthase subunit HisF4.1.30.460
4u7wNDPMxaA/0.459
2ktdPUCProstaglandin-H2 D-isomerase5.3.99.20.458
3iaeD7KBenzaldehyde lyase/0.458
3mpiFADGlutaryl-CoA dehydrogenase1.3.99.320.458
1h69FADNAD(P)H dehydrogenase [quinone] 11.6.5.20.457
3od0PCGcGMP-dependent protein kinase 12.7.11.120.457
1h66FADNAD(P)H dehydrogenase [quinone] 11.6.5.20.456
2cmjNAPIsocitrate dehydrogenase [NADP] cytoplasmic1.1.1.420.456
4iwo1H4Serine/threonine-protein kinase TBK12.7.11.10.456
3gxlQIGTGF-beta receptor type-12.7.11.300.455
1rw8580TGF-beta receptor type-12.7.11.300.454
1k6cMK1Gag-Pol polyprotein3.4.23.160.453
2a1mCAMCamphor 5-monooxygenase1.14.15.10.453
3nwxKVSGag-Pol polyprotein3.4.23.160.453
3t3c017Gag-Pol polyprotein3.4.23.160.453
4bdcODHSerine/threonine-protein kinase Chk22.7.11.10.453
3otfCMPPotassium/sodium hyperpolarization-activated cyclic nucleotide-gated channel 4/0.452
4q71FADBifunctional protein PutA/0.452
3a1nNADNDP-sugar epimerase/0.451
3d7kD7KBenzaldehyde lyase/0.451
3uibSB2Putative mitogen-activated protein kinase/0.451
4cdmFADDeoxyribodipyrimidine photolyase/0.451
2rkvZBATrichothecene 3-O-acetyltransferase/0.450
3hx4ANPCalmodulin-domain protein kinase 1/0.450
3mdmFJZCholesterol 24-hydroxylase/0.450
4zohFADPutative oxidoreductase FAD-binding subunit/0.450
5ar4SB2Receptor-interacting serine/threonine-protein kinase 22.7.11.10.450
1dirNADDihydropteridine reductase1.5.1.340.449
1o76CAMCamphor 5-monooxygenase1.14.15.10.449
1v9aSAHUncharacterized protein/0.449
2wotZZGTGF-beta receptor type-12.7.11.300.449
3r6sCMPCRP-like cAMP-activated global transcriptional regulator/0.449
3s4qNK0Mitogen-activated protein kinase 14/0.449
1py5PY1TGF-beta receptor type-12.7.11.300.448
2hydADPPutative multidrug export ATP-binding/permease protein SAV18663.6.30.448
3slkNDPPolyketide synthase extender module 2/0.448
3wfjNAD2-dehydropantoate 2-reductase/0.448
4gk3L87Ephrin type-A receptor 32.7.10.10.448
5ackATP3-phosphoinositide-dependent protein kinase 12.7.11.10.448
1bwsNDPGDP-L-fucose synthase/0.447
1gg5FADNAD(P)H dehydrogenase [quinone] 11.6.5.20.447
1zarADPRIO-type serine/threonine-protein kinase Rio22.7.11.10.447
2xckMH43-phosphoinositide-dependent protein kinase 12.7.11.10.447
3ig6438Urokinase-type plasminogen activator3.4.21.730.447
3qakUKAAdenosine receptor A2a/0.447
1qpdSTUTyrosine-protein kinase Lck2.7.10.20.446
3vt7VDXVitamin D3 receptor/0.446
1kboFADNAD(P)H dehydrogenase [quinone] 11.6.5.20.445
1t2cNAIL-lactate dehydrogenase1.1.1.270.445
1tezFADDeoxyribodipyrimidine photo-lyase4.1.99.30.445
2h8hH8HProto-oncogene tyrosine-protein kinase Src2.7.10.20.445
2vj6VG5Beta-secretase 13.4.23.460.445
3a14NDP1-deoxy-D-xylulose 5-phosphate reductoisomerase/0.445
3mtfA3FActivin receptor type-12.7.11.300.445
3nwq2NCGag-Pol polyprotein3.4.23.160.445
4gl4NAIAlcohol dehydrogenase class-3/0.445
4xj43ATCyclic GMP-AMP synthase/0.445
1f8fNADBenzyl alcohol dehydrogenase/0.444
3cd3STUTyrosine-protein kinase Fes/Fps2.7.10.20.444
3tneRITCandidapepsin-13.4.23.240.444
4im01FVSerine/threonine-protein kinase TBK12.7.11.10.444
4l06NAPIsocitrate dehydrogenase [NADP] cytoplasmic1.1.1.420.444
4nbwNADShort-chain dehydrogenase/reductase SDR/0.444
4riyADPEpidermal growth factor receptor2.7.10.10.444
5d3qGDPDynamin-13.6.5.50.444
1e3eNAIAlcohol dehydrogenase 41.1.1.10.443
2gjlFMNNitronate monooxygenase1.13.12.160.443
3ik6HCZGlutamate receptor 2/0.443
4ambDUDPutative glycosyl transferase/0.443
4eutBX7Serine/threonine-protein kinase TBK12.7.11.10.443
4fv7E94Mitogen-activated protein kinase 12.7.11.240.443
4l04NAPIsocitrate dehydrogenase [NADP] cytoplasmic1.1.1.420.443
1rfuADPPyridoxal kinase2.7.1.350.442
2clqSTUMitogen-activated protein kinase kinase kinase 52.7.11.250.442
2cmvNAPIsocitrate dehydrogenase [NADP] cytoplasmic1.1.1.420.442
3r2b05BMAP kinase-activated protein kinase 22.7.11.10.442
3zh8C58Protein kinase C iota type2.7.11.130.442
4enhFVXCholesterol 24-hydroxylase/0.442
4kb81QNCasein kinase I isoform delta2.7.11.10.442
5eccNAPDehydrofolate reductase type I/0.442
1gij2PUCyclin-dependent kinase 22.7.11.220.441
1u3dFADCryptochrome-1/0.441
1u54ACPActivated CDC42 kinase 1/0.441
2c59NADGDP-mannose 3,5-epimerase5.1.3.180.441
3cblSTUTyrosine-protein kinase Fes/Fps2.7.10.20.441
4c9pCAMCytochrome P450/0.441
5eaiFADNAD(P)H dehydrogenase [quinone] 11.6.5.20.441
2brmDFZSerine/threonine-protein kinase Chk12.7.11.10.440
2g1r3IGRenin3.4.23.150.440
2ntrL00Beta-secretase 13.4.23.460.440
3bbtFMMReceptor tyrosine-protein kinase erbB-42.7.10.10.440
3gggNADPrephenate dehydrogenase/0.440
3mlaJJZProbable nicotinate-nucleotide adenylyltransferase/0.440
3o03NAPDehydrogenase with different specificities (Related to short-chain alcohol dehydrogenase)/0.440
3t4nADP5'-AMP-activated protein kinase subunit gamma/0.440
3u9eCOALmo1369 protein/0.440
3zptM8YGag-Pol polyprotein3.4.23.160.440
4j95ACPFibroblast growth factor receptor 2/0.440
4z07PCGcGMP-dependent protein kinase 12.7.11.120.440