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sc-PDB

An Annotated Database of Druggable Binding Sites from the Protein DataBank

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Distribution of Cavity similarities measured by Shaper
You can zoom onto the graph by using the mouse to make a selection

Cavities 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

Reference Protein Data Bank Entry :
PDB ID HET Uniprot Name EC Number
4hneADPPhosphatidylinositol 4-kinase type 2-alpha

Complex with similar cavities

PDB ID HET Uniprot Name EC Number Cavity
Similarity		 Align
4hneADPPhosphatidylinositol 4-kinase type 2-alpha/1.000
4bfrJ82Phosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit beta isoform2.7.1.1530.516
3qaqQAQPhosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.498
3s2a2NQPhosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.498
4cdmFO1Deoxyribodipyrimidine photolyase/0.493
4wzyATPMaltokinase2.7.1.1750.492
4xx9ATP3-phosphoinositide-dependent protein kinase 12.7.11.10.490
1e7vLY2Phosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.486
1lhwESMSex hormone-binding globulin/0.485
4ezk0SDPhosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.483
4fewPP2Aminoglycoside 3'-phosphotransferase AphA1-IAB/0.479
4fex0TOAminoglycoside 3'-phosphotransferase AphA1-IAB/0.479
4flh14KPhosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.477
4bbxLKFcAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A3.1.4.170.472
4fjz4FJPhosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.472
3ml8ML8Phosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.471
2ouu35GcAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A3.1.4.170.470
3qk0QK0Phosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.470
4ddl0JQcAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A3.1.4.170.469
1s4dSAHUroporphyrinogen-III C-methyltransferase2.1.1.1070.466
3ls8AJZPhosphatidylinositol 3-kinase catalytic subunit type 32.7.1.1370.466
4hf415HcAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A3.1.4.170.464
4ajdF04cAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A3.1.4.170.463
4ajwVWNPhosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit delta isoform2.7.1.1530.462
4fjyFJYPhosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.461
4fob0USALK tyrosine kinase receptor2.7.10.10.461
4l23X6KPhosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit alpha isoform/0.461
4qms1N1Serine/threonine-protein kinase 242.7.11.10.461
1e90MYCPhosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.459
4j6i1JVPhosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.459
2r7b2533-phosphoinositide-dependent protein kinase 12.7.11.10.458
3l08ZIGPhosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.458
4ezj0SCPhosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.458
2wotZZGTGF-beta receptor type-12.7.11.300.456
3ml9ML9Phosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.456
4ajfF03cAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A3.1.4.170.456
4bfmANPMaternal embryonic leucine zipper kinase2.7.11.10.456
4fhk0U0Phosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.456
3sn7540cAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A3.1.4.170.455
2c4jGSOGlutathione S-transferase Mu 22.5.1.180.454
3pre3REPhosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.454
2pulACPMethylthioribose kinase2.7.1.1000.453
4anwO92Phosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.453
4rrvATP3-phosphoinositide-dependent protein kinase 12.7.11.10.453
1uu8BI13-phosphoinositide-dependent protein kinase 12.7.11.10.452
4ct1ATP3-phosphoinositide-dependent protein kinase 12.7.11.10.452
1e8zSTUPhosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.451
1lolXMPOrotidine 5'-phosphate decarboxylase4.1.1.230.451
3ituIBMcGMP-dependent 3',5'-cyclic phosphodiesterase3.1.4.170.451
3nxxNDPDihydrofolate reductase1.5.1.30.451
3zh8C58Protein kinase C iota type2.7.11.130.451
4feu537Aminoglycoside 3'-phosphotransferase AphA1-IAB/0.451
3we45FIRibosomal protein S6 kinase beta-12.7.11.10.450
4hvb19PPhosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.450
4mxxDB8Proto-oncogene tyrosine-protein kinase Src2.7.10.20.450
1ywrLI9Mitogen-activated protein kinase 14/0.449
2ourCMPcAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A3.1.4.170.449
2qblCAMCamphor 5-monooxygenase1.14.15.10.449
3ormAGSSerine/threonine protein kinase/0.449
3zvvXAZPhosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.449
4qnaX11Serine/threonine-protein kinase 242.7.11.10.449
2fwzH71Heat shock protein HSP 90-alpha/0.447
3dpd41APhosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.447
3d8vUD1Bifunctional protein GlmU/0.446
3zu2NAIEnoyl-[acyl-carrier-protein] reductase [NADH]/0.446
4bb6HD1Corticosteroid 11-beta-dehydrogenase isozyme 11.1.1.1460.446
4ho8THMGlucose-1-phosphate thymidylyltransferase/0.446
2o8h227cAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A3.1.4.170.445
2olcADPMethylthioribose kinase2.7.1.1000.445
3adaNADSubunit alpha of sarocosine oxidase/0.445
4anv751Phosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.445
5ackATP3-phosphoinositide-dependent protein kinase 12.7.11.10.445
1sojIBMcGMP-inhibited 3',5'-cyclic phosphodiesterase B3.1.4.170.444
3inxJZCHeat shock protein HSP 90-alpha/0.444
4deaNHIAurora kinase A2.7.11.10.444
4fcd0T6cAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A3.1.4.170.444
4tv3ML9Phosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit alpha isoform/0.444
5av4GENDeath-associated protein kinase 12.7.11.10.444
1oriSAHProtein arginine N-methyltransferase 1/0.443
2izuP01Casein kinase I isoform gamma-32.7.11.10.443
2pe24643-phosphoinositide-dependent protein kinase 12.7.11.10.443
2v4lABJPhosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.443
2x7hPFNProstaglandin reductase 310.443
2zb45OPProstaglandin reductase 21.3.1.480.443
3igoANPCalmodulin-domain protein kinase 1, putative/0.443
3nr4PYVAbscisic acid receptor PYL2/0.443
4g1z0VPVitamin D3 receptor A/0.443
4llkMEWcAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A3.1.4.170.443
4mv1ADPBiotin carboxylase6.3.4.140.443
4nkvAERSteroid 17-alpha-hydroxylase/17,20 lyase/0.443
1uy9PU6Heat shock protein HSP 90-alpha/0.442
2puiADPMethylthioribose kinase2.7.1.1000.442
3qarQARPhosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.442
4gb90WRPhosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.442
5av2KMPDeath-associated protein kinase 12.7.11.10.442
1agwSU2Fibroblast growth factor receptor 1/0.441
1diuBDMDihydrofolate reductase1.5.1.30.441
1qxlFR8Adenosine deaminase3.5.4.40.441
1xonPILcAMP-specific 3',5'-cyclic phosphodiesterase 4D3.1.4.530.441
3zw3ZW3Phosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.441
4dlj6RGMitogen-activated protein kinase 14/0.441
4eufNADTrans-2-enoyl-CoA reductase [NADH]/0.441
4fcb0T7cAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A3.1.4.170.441
1lsjNADHydroxyacyl-coenzyme A dehydrogenase, mitochondrial1.1.1.350.440
3ma301ISerine/threonine-protein kinase pim-12.7.11.10.440
3qcs3Q13-phosphoinositide-dependent protein kinase 12.7.11.10.440
4a7cE46Serine/threonine-protein kinase pim-12.7.11.10.440
4cd0AWJALK tyrosine kinase receptor2.7.10.10.440
4muw2F4cAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A3.1.4.170.440