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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
4gyiADPUncharacterized protein

Complex with similar binding sites

PDB ID HET Uniprot Name EC Number Binding Site
Similarity		 Align
4gyiADPUncharacterized protein/1.000
1zarADPRIO-type serine/threonine-protein kinase Rio22.7.11.10.522
1tqmANPRIO-type serine/threonine-protein kinase Rio22.7.11.10.503
5ce3ADPProtein kinase YopO/0.499
5cvfATPCasein kinase II subunit alpha2.7.11.10.493
4y12AGSSerine/threonine-protein kinase PknG2.7.11.10.486
1pmn984Mitogen-activated protein kinase 102.7.11.240.483
4biiPYWEnoyl-[acyl-carrier-protein] reductase [NADH]1.3.1.90.483
3bu5ATPInsulin receptor2.7.10.10.480
3cgfJNFMitogen-activated protein kinase 102.7.11.240.477
1tqpATPRIO-type serine/threonine-protein kinase Rio22.7.11.10.475
2ghmLICMitogen-activated protein kinase 14/0.475
5dnrATPAurora kinase A2.7.11.10.475
1j1cADPGlycogen synthase kinase-3 beta2.7.11.260.474
1pjkANPCasein kinase II subunit alpha2.7.11.10.474
4mq12C3Dual specificity tyrosine-phosphorylation-regulated kinase 1A2.7.12.10.474
3oriAGSSerine/threonine protein kinase/0.473
4o0rX4ZSerine/threonine-protein kinase PAK 12.7.11.10.473
1tz8DESTransthyretin/0.472
3ortAGSSerine/threonine protein kinase/0.472
4fg7ATPCalcium/calmodulin-dependent protein kinase type 12.7.11.170.472
2qo4CHDFatty acid-binding protein 10-A, liver basic/0.471
4q5hANPProtein kinase OspG2.70.471
1sn5T3Transthyretin/0.470
3poz03PEpidermal growth factor receptor2.7.10.10.470
4j98ACPFibroblast growth factor receptor 2/0.470
3rwpABQ3-phosphoinositide-dependent protein kinase 12.7.11.10.469
4xx9ATP3-phosphoinositide-dependent protein kinase 12.7.11.10.468
1jipKTN6-deoxyerythronolide B hydroxylase/0.467
3a99ANPSerine/threonine-protein kinase pim-12.7.11.10.467
3qk0QK0Phosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.467
1ictT44Transthyretin/0.464
2xbjXBJSerine/threonine-protein kinase Chk22.7.11.10.464
3oroAGSSerine/threonine protein kinase/0.464
3q4zANPSerine/threonine-protein kinase PAK 12.7.11.10.464
4h3c0YZDitrans,polycis-undecaprenyl-diphosphate synthase ((2E,6E)-farnesyl-diphosphate specific)2.5.1.310.464
4nky3QZSteroid 17-alpha-hydroxylase/17,20 lyase/0.464
4qmlANPSerine/threonine-protein kinase 242.7.11.10.464
1i44ACPInsulin receptor2.7.10.10.463
2b9fADPMitogen-activated protein kinase FUS32.7.11.240.463
2i4jDRJPeroxisome proliferator-activated receptor gamma/0.463
4awiAQ2Mitogen-activated protein kinase 82.7.11.240.462
4j95ACPFibroblast growth factor receptor 2/0.462
3flkNAITartrate dehydrogenase/decarboxylase1.1.1.930.461
3w0sANPHygromycin-B 4-O-kinase2.7.1.1630.461
1zaoATPRIO-type serine/threonine-protein kinase Rio22.7.11.10.459
1ie4T44Transthyretin/0.458
1q99ANPSerine/threonine-protein kinase SKY12.7.11.10.457
2fgjATPAlpha-hemolysin translocation ATP-binding protein HlyB/0.457
2w2lNADD-mandelate dehydrogenase/0.457
3hrfATP3-phosphoinositide-dependent protein kinase 12.7.11.10.457
3kvxFMYMitogen-activated protein kinase 102.7.11.240.457
4y95746Tyrosine-protein kinase/0.457
1nvtNAPShikimate dehydrogenase (NADP(+))/0.456
2w9sTOPDihydrofolate reductase type 1 from Tn40031.5.1.30.456
2xrwANPMitogen-activated protein kinase 82.7.11.240.456
3keuATPPyridoxal kinase2.7.1.350.456
4cy8FDA2-hydroxybiphenyl-3-monooxygenase/0.456
4k1b1OCSerine/threonine-protein kinase pim-12.7.11.10.456
4ks7X4ZSerine/threonine-protein kinase PAK 62.7.11.10.456
1ig1ANPDeath-associated protein kinase 12.7.11.10.455
4bl1ANPMaternal embryonic leucine zipper kinase2.7.11.10.455
1zp9ATPRIO-type serine/threonine-protein kinase Rio12.7.11.10.454
2hcdBIVVitamin D3 receptor A/0.454
2qo6CHDFatty acid-binding protein 10-A, liver basic/0.454
2xclANPPhosphoribosylamine--glycine ligase/0.454
3bbtFMMReceptor tyrosine-protein kinase erbB-42.7.10.10.454
3sgtP09Ditrans,polycis-undecaprenyl-diphosphate synthase ((2E,6E)-farnesyl-diphosphate specific)/0.454
3tqhNDPQuinone oxidoreductase/0.454
5ackATP3-phosphoinositide-dependent protein kinase 12.7.11.10.454
2bx8AZQSerum albumin/0.453
2y3rTIRTamL/0.453
3i4bZ48Glycogen synthase kinase-3 beta2.7.11.260.453
3ambVX6cAMP-dependent protein kinase catalytic subunit alpha2.7.11.110.452
3q9xEMOCasein kinase II subunit alpha2.7.11.10.452
4izy1J2Mitogen-activated protein kinase 82.7.11.240.452
3t8oATPRhodopsin kinase/0.451
4k33ACPFibroblast growth factor receptor 32.7.10.10.451
5eypLOCTubulin beta chain/0.451
1nzdUPGDNA beta-glucosyltransferase/0.450
2jn3JN3Fatty acid-binding protein, liver/0.450
2nnhREACytochrome P450 2C8/0.450
3kmwATPIntegrin-linked protein kinase2.7.11.10.450
4gb90WRPhosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.450
4j99ACPFibroblast growth factor receptor 2/0.450
4lfiGNPCasein kinase II subunit alpha2.7.11.10.450
2vn0TDZCytochrome P450 2C8/0.449
2yxuATPPyridoxal kinase2.7.1.350.449
3g49NAPCorticosteroid 11-beta-dehydrogenase isozyme 11.1.1.1460.449
3igoANPCalmodulin-domain protein kinase 1, putative/0.449
3ma301ISerine/threonine-protein kinase pim-12.7.11.10.449
3q43D66M1 family aminopeptidase3.4.110.449
3wowANPCasein kinase II subunit alpha2.7.11.10.449
4a1zADPKinesin-like protein KIF11/0.449
4a6cQG9Gag-Pol polyprotein3.4.23.160.449
4en4ATPPyridoxal kinase2.7.1.350.449
2brmDFZSerine/threonine-protein kinase Chk12.7.11.10.448
2bu2ATP[Pyruvate dehydrogenase (acetyl-transferring)] kinase isozyme 2, mitochondrial2.7.11.20.448
2e0aANP[Pyruvate dehydrogenase (acetyl-transferring)] kinase isozyme 4, mitochondrial2.7.11.20.448
2i4zDRHPeroxisome proliferator-activated receptor gamma/0.448
2punACPMethylthioribose kinase2.7.1.1000.448
2y3sTIRTamL/0.448
2z7qACPRibosomal protein S6 kinase alpha-12.7.11.10.448
3gqvNAPEnoyl reductase LovC10.448
3lmgANPReceptor tyrosine-protein kinase erbB-32.7.10.10.448
4b8zNAPGDP-L-fucose synthase1.1.1.2710.448
4bgiI4IEnoyl-[acyl-carrier-protein] reductase [NADH]1.3.1.90.448
4jia1K3Tyrosine-protein kinase JAK2/0.448
4l2iFADElectron transfer flavoprotein alpha/beta-subunit/0.448
4l8u9AZSerum albumin/0.448
4q5jANPProtein BRASSINOSTEROID INSENSITIVE 12.7.10.10.448
1ad5ANPTyrosine-protein kinase HCK2.7.10.20.447
1xr1ANPSerine/threonine-protein kinase pim-12.7.11.10.447
3u4uLNHCasein kinase II subunit alpha2.7.11.10.447
4ix5ANPUncharacterized protein/0.447
4ix6ADPUncharacterized protein/0.447
1dawANPCasein kinase II subunit alpha2.7.11.10.446
2b9jADPMitogen-activated protein kinase FUS32.7.11.240.446
2bujSTUSerine/threonine-protein kinase 16/0.446
3zc3NAPFerredoxin--NADP reductase1.18.1.20.446
4b8wNAPGDP-L-fucose synthase1.1.1.2710.446
4g1z0VPVitamin D3 receptor A/0.446
4ki8ADP60 kDa chaperonin/0.446
1k6cMK1Gag-Pol polyprotein3.4.23.160.445
1zthADPRIO-type serine/threonine-protein kinase Rio12.7.11.10.445
2qo5CHDFatty acid-binding protein 10-A, liver basic/0.445
4hyu1BKMitogen-activated protein kinase 82.7.11.240.445
4ic7ANPMitogen-activated protein kinase 72.7.11.240.445
1gjvAGS[3-methyl-2-oxobutanoate dehydrogenase [lipoamide]] kinase, mitochondrial2.7.11.40.444
3icrCOACoenzyme A disulfide reductase/0.444
3zuxTCHTransporter/0.444
4aguD15Cyclin-dependent kinase-like 1/0.444
4id71G0Activated CDC42 kinase 1/0.444
1hdcCBO3-alpha-(or 20-beta)-hydroxysteroid dehydrogenase1.1.1.530.443
2cf6NAPCinnamyl alcohol dehydrogenase 51.1.1.1950.443
2objVRVSerine/threonine-protein kinase pim-12.7.11.10.443
3zh8C58Protein kinase C iota type2.7.11.130.443
4enxZ20Serine/threonine-protein kinase pim-12.7.11.10.443
4jr7GNPCasein kinase II subunit alpha2.7.11.10.443
4lx9ACON-alpha-acetyltransferase2.3.10.443
1c6yMK1Protease/0.442
1db1VDXVitamin D3 receptor/0.442
1sn0T44Transthyretin/0.442
2f4bEHAPeroxisome proliferator-activated receptor gamma/0.442
3lpkZ76Beta-secretase 13.4.23.460.442
4b7dQLECytochrome P450 monooxygenase PikC/0.442
4is3NAD3alpha-hydroxy bile acid-CoA-ester 3-dehydrogenase 21.17.98.10.442
5cnnANPEpidermal growth factor receptor2.7.10.10.442
5jqbIBPEnvelope glycoprotein/0.442
1d4aFADNAD(P)H dehydrogenase [quinone] 11.6.5.20.441
1kkq471Peroxisome proliferator-activated receptor alpha/0.441
2j0m4STFocal adhesion kinase 12.7.10.20.441
3kpkFADSulfide-quinone reductase/0.441
3qcx3Q23-phosphoinositide-dependent protein kinase 12.7.11.10.441
4ewn0VRImidazole glycerol phosphate synthase subunit HisF4.1.30.441
4fl3ANPTyrosine-protein kinase SYK2.7.10.20.441
4o2bLOCTubulin beta-2B chain/0.441
4q71FADBifunctional protein PutA/0.441
4xldBRLPeroxisome proliferator-activated receptor gamma/0.441
5av2KMPDeath-associated protein kinase 12.7.11.10.441
1uu8BI13-phosphoinositide-dependent protein kinase 12.7.11.10.440
2ft9CHDFatty acid-binding protein 2, liver/0.440
2obyNAPQuinone oxidoreductase PIG310.440
2v7a627Tyrosine-protein kinase ABL12.7.10.20.440
2vxoXMPGMP synthase [glutamine-hydrolyzing]6.3.5.20.440
2y4gTIRTamL/0.440
3k3bADPKinesin-like protein KIF11/0.440
3th8TH9Ditrans,polycis-undecaprenyl-diphosphate synthase ((2E,6E)-farnesyl-diphosphate specific)2.5.1.310.440
3w33W19Epidermal growth factor receptor2.7.10.10.440
4iteTEYVitamin D3 receptor/0.440
4l9q9TPSerum albumin/0.440
4lrjANPUncharacterized protein/0.440
4riyANPReceptor tyrosine-protein kinase erbB-32.7.10.10.440
4wh3ATPN-acetylhexosamine 1-kinase2.7.1.1620.440