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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
3pnlADPPEP-dependent dihydroxyacetone kinase, ADP-binding subunit DhaL2.7

Complex with similar binding sites

PDB ID HET Uniprot Name EC Number Binding Site
Similarity		 Align
3pnlADPPEP-dependent dihydroxyacetone kinase, ADP-binding subunit DhaL2.71.000
4lrzADPPEP-dependent dihydroxyacetone kinase, ADP-binding subunit DhaL2.70.618
2btdADPPEP-dependent dihydroxyacetone kinase, ADP-binding subunit DhaL2.70.556
3cr3ADPPTS-dependent dihydroxyacetone kinase, ADP-binding subunit DhaL2.70.551
1uu7BI23-phosphoinositide-dependent protein kinase 12.7.11.10.495
3ge1ADPGlycerol kinase/0.488
3uwqU5POrotidine 5'-phosphate decarboxylase/0.486
2hy0306Serine/threonine-protein kinase Chk12.7.11.10.481
1e90MYCPhosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.478
4l23X6KPhosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit alpha isoform/0.478
1j39UPGDNA beta-glucosyltransferase/0.477
3lovFADProtoporphyrinogen oxidase/0.477
1sx4ADP60 kDa chaperonin/0.474
2r0cFADPutative FAD-monooxygenase/0.474
2yyuC5POrotidine 5'-phosphate decarboxylase/0.473
3l08ZIGPhosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.473
2xckMH43-phosphoinositide-dependent protein kinase 12.7.11.10.472
4c4h7RODual specificity protein kinase TTK2.7.12.10.470
1p31EPUUDP-N-acetylmuramate--L-alanine ligase6.3.2.80.469
4qq3XMPInosine-5'-monophosphate dehydrogenase/0.469
4hjfC2EGGDEF family protein/0.468
4ki8ADP60 kDa chaperonin/0.468
2br1PFPSerine/threonine-protein kinase Chk12.7.11.10.467
2chz093Phosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.467
5jlaNADPutative short-chain dehydrogenase/reductase/0.467
1uu3LY43-phosphoinositide-dependent protein kinase 12.7.11.10.466
1v0oINRCell division control protein 2 homolog2.7.11.220.466
2biyATP3-phosphoinositide-dependent protein kinase 12.7.11.10.466
3rwpABQ3-phosphoinositide-dependent protein kinase 12.7.11.10.466
3dpd41APhosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.464
2qo9ANPEphrin type-A receptor 32.7.10.10.463
3orzBI43-phosphoinositide-dependent protein kinase 12.7.11.10.462
5ackATP3-phosphoinositide-dependent protein kinase 12.7.11.10.461
5l3rGCPCell division protein FtsY homolog, chloroplastic/0.461
2czfXMPOrotidine 5'-phosphate decarboxylase4.1.1.230.460
3a99ANPSerine/threonine-protein kinase pim-12.7.11.10.460
3qd33Q53-phosphoinositide-dependent protein kinase 12.7.11.10.460
4n6hEJ4Delta-type opioid receptor/0.460
4xx9ATP3-phosphoinositide-dependent protein kinase 12.7.11.10.460
1h1wATP3-phosphoinositide-dependent protein kinase 12.7.11.10.459
2i5bADPPyridoxine kinase/0.459
2zm4KSMTyrosine-protein kinase Lck2.7.10.20.459
3otuBI43-phosphoinositide-dependent protein kinase 12.7.11.10.459
3vjoANPEpidermal growth factor receptor2.7.10.10.459
4fsrHKCSerine/threonine-protein kinase Chk12.7.11.10.459
1j7kATPHolliday junction ATP-dependent DNA helicase RuvB/0.458
3sc13S13-phosphoinositide-dependent protein kinase 12.7.11.10.458
3umoATPATP-dependent 6-phosphofructokinase isozyme 22.7.1.110.458
5br7FADUDP-galactopyranose mutase/0.458
5dbvCOAAldehyde Dehydrogenase/0.458
1zarADPRIO-type serine/threonine-protein kinase Rio22.7.11.10.457
4jia1K3Tyrosine-protein kinase JAK2/0.457
1t44ATPActin, alpha skeletal muscle/0.456
3q8xUD1Toxin zeta/0.456
4aw0ATP3-phosphoinositide-dependent protein kinase 12.7.11.10.456
4fad0TBPhosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.456
4mxxDB8Proto-oncogene tyrosine-protein kinase Src2.7.10.20.456
2vwu7X1Ephrin type-B receptor 42.7.10.10.455
1menGARTrifunctional purine biosynthetic protein adenosine-32.1.2.20.454
3drcMTXDihydrofolate reductase1.5.1.30.454
4aw1ATP3-phosphoinositide-dependent protein kinase 12.7.11.10.454
2cgw3C3Serine/threonine-protein kinase Chk12.7.11.10.453
3cisATPUniversal stress protein Rv2623/0.453
3qaqQAQPhosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.453
4rrvATP3-phosphoinositide-dependent protein kinase 12.7.11.10.453
1nzdUPGDNA beta-glucosyltransferase/0.452
1reoFADL-amino-acid oxidase1.4.3.20.452
1wuuANPGalactokinase2.7.1.60.452
3nd1SAHPrecorrin-6A synthase (Deacetylating)/0.452
4mxoDB8Proto-oncogene tyrosine-protein kinase Src2.7.10.20.452
1gldADPGlycerol kinase/0.451
2b9wFADPutative aminooxidase/0.451
2eiiNAD1-pyrroline-5-carboxylate dehydrogenase/0.451
2pywADPMethylthioribose kinase2.7.1.1000.451
2y8qADP5'-AMP-activated protein kinase subunit gamma-1/0.451
3h4lANPDNA mismatch repair protein PMS1/0.451
3qd03Q43-phosphoinositide-dependent protein kinase 12.7.11.10.451
4hys1BJMitogen-activated protein kinase 82.7.11.240.451
5g3tFDAFlavin-dependent L-tryptophan oxidase VioA/0.451
1nzfUPGDNA beta-glucosyltransferase/0.450
1rbyGARTrifunctional purine biosynthetic protein adenosine-32.1.2.20.450
2wotZZGTGF-beta receptor type-12.7.11.300.450
4dfrMTXDihydrofolate reductase1.5.1.30.450
4nt03DUOrotidine 5'-phosphate decarboxylase4.1.1.230.450
2a87FADThioredoxin reductase1.8.1.90.449
2p33J07Mitogen-activated protein kinase 102.7.11.240.449
2r7b2533-phosphoinositide-dependent protein kinase 12.7.11.10.449
3tx1FADUDP-N-acetylenolpyruvoylglucosamine reductase/0.449
4ekl0RFRAC-alpha serine/threonine-protein kinase2.7.11.10.449
2acxANPG protein-coupled receptor kinase 62.7.11.160.448
2ituITQEpidermal growth factor receptor2.7.10.10.448
3jskAHZThiamine thiazole synthase/0.448
4c4f7CEDual specificity protein kinase TTK2.7.12.10.448
4jrnANPRhoptry kinase family protein/0.448
4u0sADPAdenosine monophosphate-protein transferase FICD2.7.7.n10.448
2c3lIDZSerine/threonine-protein kinase Chk12.7.11.10.447
3bqr4RBDeath-associated protein kinase 3/0.447
3qcs3Q13-phosphoinositide-dependent protein kinase 12.7.11.10.447
1glfADPGlycerol kinase/0.446
1okkGCPSignal recognition particle protein/0.446
1okkGCPSignal recognition particle receptor FtsY/0.446
1okySTU3-phosphoinositide-dependent protein kinase 12.7.11.10.446
1pnvTYDdTDP-epi-vancosaminyltransferase2.4.1.3110.446
1uu8BI13-phosphoinositide-dependent protein kinase 12.7.11.10.446
3a4oSTUTyrosine-protein kinase Lyn2.7.10.20.446
3junAKDPhenazine biosynthesis protein A/B/0.446
3ml8ML8Phosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.446
3qd43Q63-phosphoinositide-dependent protein kinase 12.7.11.10.446
3umpATPATP-dependent 6-phosphofructokinase isozyme 22.7.1.110.446
3w0nANPHygromycin-B 4-O-kinase2.7.1.1630.446
4cdmFADDeoxyribodipyrimidine photolyase/0.446
4kxl6C62'-deoxynucleoside 5'-phosphate N-hydrolase 1/0.446
1e7vLY2Phosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.445
2ww4ADP4-diphosphocytidyl-2-C-methyl-D-erythritol kinase2.7.1.1480.445
3g5qFADMethylenetetrahydrofolate--tRNA-(uracil-5-)-methyltransferase TrmFO/0.445
3hrfATP3-phosphoinositide-dependent protein kinase 12.7.11.10.445
4a06ATP3-phosphoinositide-dependent protein kinase 12.7.11.10.445
4yuqKS1Calmodulin-like domain protein kinase/0.445
5b0oADPFlagellum-specific ATP synthase3.6.3.140.445
1pf9ADP60 kDa chaperonin/0.444
2c5yMTWCyclin-dependent kinase 22.7.11.220.444
3my5RFZCyclin-dependent kinase 22.7.11.220.444
4ft7H3KSerine/threonine-protein kinase Chk12.7.11.10.444
4ft9H4KSerine/threonine-protein kinase Chk12.7.11.10.444
4geb0LDKynurenine/alpha-aminoadipate aminotransferase, mitochondrial2.6.1.390.444
5fsxADPUncharacterized protein/0.444
1e9hINRCyclin-dependent kinase 22.7.11.220.443
1lolXMPOrotidine 5'-phosphate decarboxylase4.1.1.230.443
1qxoFMNChorismate synthase/0.443
1uu9BI33-phosphoinositide-dependent protein kinase 12.7.11.10.443
1zrzBI1Protein kinase C iota type2.7.11.130.443
2itnANPEpidermal growth factor receptor2.7.10.10.443
2v5aLZLBiotin carboxylase6.3.4.140.443
2ym3YM3Serine/threonine-protein kinase Chk12.7.11.10.443
3eljGS7Mitogen-activated protein kinase 82.7.11.240.443
3qczANPDihydrofolate synthase/folylpolyglutamate synthase/0.443
3w0sANPHygromycin-B 4-O-kinase2.7.1.1630.443
4u03GTPCyclic GMP-AMP synthase/0.443
4djhJDCKappa-type opioid receptor/0.443
1glbADPGlycerol kinase/0.442
1gleADPGlycerol kinase/0.442
1ipeNDPTropinone reductase 21.1.1.2360.442
1omoNADAlanine dehydrogenase/0.442
1sxjAGSReplication factor C subunit 1/0.442
2hog710Serine/threonine-protein kinase Chk12.7.11.10.442
2ou5FMNPyridoxamine 5'-phosphate oxidase-related FMN-binding protein/0.442
2pe15173-phosphoinositide-dependent protein kinase 12.7.11.10.442
2q6bHR23-hydroxy-3-methylglutaryl-coenzyme A reductase1.1.1.340.442
3d8vUD1Bifunctional protein GlmU/0.442
3hdhNADHydroxyacyl-coenzyme A dehydrogenase, mitochondrial1.1.1.350.442
3s2a2NQPhosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.442
3zokNAD3-dehydroquinate synthase, chloroplastic4.2.3.40.442
4e730NRMitogen-activated protein kinase 82.7.11.240.442
4k33ACPFibroblast growth factor receptor 32.7.10.10.442
4l2iFADElectron transfer flavoprotein alpha/beta-subunit/0.442
1e8wQUEPhosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.441
1ht0NADAlcohol dehydrogenase 1C1.1.1.10.441
1lp6C5POrotidine 5'-phosphate decarboxylase4.1.1.230.441
1u8vFAD4-hydroxybutyryl-CoA dehydratase/vinylacetyl-CoA-Delta-isomerase/0.441
2e9n76ASerine/threonine-protein kinase Chk12.7.11.10.441
2hk51BMTyrosine-protein kinase HCK2.7.10.20.441
2hy81STSerine/threonine-protein kinase PAK 12.7.11.10.441
2x7bCOAN-alpha-acetyltransferase2.3.10.441
3cd57HI3-hydroxy-3-methylglutaryl-coenzyme A reductase1.1.1.340.441
3inmNDPIsocitrate dehydrogenase [NADP] cytoplasmic1.1.1.420.441
3nmnPYVAbscisic acid receptor PYL1/0.441
3qaiXNNKetohexokinase/0.441
3u9eCOALmo1369 protein/0.441
3zewSTUEphrin type-B receptor 42.7.10.10.441
4fic0ULProto-oncogene tyrosine-protein kinase Src2.7.10.20.441
4fuyEK2Mitogen-activated protein kinase 12.7.11.240.441
4jx1CAHCamphor 5-monooxygenase1.14.15.10.441
4l2yXXKPhosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit alpha isoform/0.441
4rqkATP3-phosphoinositide-dependent protein kinase 12.7.11.10.441
4s33ANPMitogen-activated protein kinase 12.7.11.240.441
1pn3TYDdTDP-epi-vancosaminyltransferase2.4.1.3110.440
1rj9GCPSignal recognition particle receptor FtsY/0.440
2phkATPPhosphorylase b kinase gamma catalytic chain, skeletal muscle/heart isoform2.7.11.190.440
3nuyJPZ3-phosphoinositide-dependent protein kinase 12.7.11.10.440
3uvp048Mitogen-activated protein kinase 14/0.440
4dpuAGSMevalonate diphosphate decarboxylase/0.440
4ftt6HKSerine/threonine-protein kinase Chk12.7.11.10.440
4kodADPTransitional endoplasmic reticulum ATPase3.6.4.60.440
4wq5ATPtRNA N6-adenosine threonylcarbamoyltransferase/0.440
5g3sFDAFlavin-dependent L-tryptophan oxidase VioA/0.440