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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
5dulNDP1-deoxy-D-xylulose 5-phosphate reductoisomerase

Complex with similar cavities

PDB ID HET Uniprot Name EC Number Cavity
Similarity		 Align
5dulNDP1-deoxy-D-xylulose 5-phosphate reductoisomerase/1.000
2r7b2533-phosphoinositide-dependent protein kinase 12.7.11.10.485
5hidB1ESerine/threonine-protein kinase B-raf2.7.11.10.471
4wq4ATPtRNA N6-adenosine threonylcarbamoyltransferase/0.464
4yhjAN2G protein-coupled receptor kinase 42.7.11.160.460
1k6vXN2Gag-Pol polyprotein3.4.23.160.459
3zk5Z18Cytochrome P450 monooxygenase PikC/0.457
2hmaSAMtRNA-specific 2-thiouridylase MnmA/0.456
2ivpATPtRNA N6-adenosine threonylcarbamoyltransferase/0.456
2ivuZD6Proto-oncogene tyrosine-protein kinase receptor Ret2.7.10.10.456
1okzUCN3-phosphoinositide-dependent protein kinase 12.7.11.10.455
4flh14KPhosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.455
1h1wATP3-phosphoinositide-dependent protein kinase 12.7.11.10.454
4ez50RSCyclin-dependent kinase 62.7.11.220.454
3rwpABQ3-phosphoinositide-dependent protein kinase 12.7.11.10.453
4fad0TBPhosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.453
1yolS03Proto-oncogene tyrosine-protein kinase Src2.7.10.20.452
3kljFADNADH-rubredoxin oxidoreductase1.18.1.10.452
1jvsNDP1-deoxy-D-xylulose 5-phosphate reductoisomerase1.1.1.2670.451
4bc6XZNSerine/threonine-protein kinase 102.7.11.10.451
4ug71EVNitric oxide synthase oxygenase1.14.13.1650.451
3i4bZ48Glycogen synthase kinase-3 beta2.7.11.260.450
4wlvNADMalate dehydrogenase, mitochondrial1.1.1.370.450
2a1y5GPGMP reductase/0.449
3eai328Nitric oxide synthase, inducible1.14.13.390.449
3zewSTUEphrin type-B receptor 42.7.10.10.449
4anuEM7Phosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.449
3lm9ADPPutative fructokinase2.7.1.40.448
3q92XNBKetohexokinase/0.448
4asdBAXVascular endothelial growth factor receptor 22.7.10.10.448
4dggI76Proto-oncogene tyrosine-protein kinase Src2.7.10.20.448
3nux3NVCyclin-dependent kinase 62.7.11.220.446
1k6pXN3Gag-Pol polyprotein3.4.23.160.445
1p44GEQEnoyl-[acyl-carrier-protein] reductase [NADH]1.3.1.90.445
3anmNDP1-deoxy-D-xylulose 5-phosphate reductoisomerase1.1.1.2670.445
3n0tOPYDipeptidyl peptidase 23.4.14.20.445
1bvrTHTEnoyl-[acyl-carrier-protein] reductase [NADH]1.3.1.90.444
1k6tXN1Gag-Pol polyprotein3.4.23.160.444
2hznKINTyrosine-protein kinase ABL12.7.10.20.444
3orzBI43-phosphoinositide-dependent protein kinase 12.7.11.10.444
3os33OSDual specificity mitogen-activated protein kinase kinase 12.7.12.20.444
3qlg1N1Proto-oncogene tyrosine-protein kinase Src2.7.10.20.444
4g1wG1WMitogen-activated protein kinase 82.7.11.240.444
4kz01UJPhosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.444
4ocgFADFAD-dependent pyridine nucleotide-disulphide oxidoreductase/0.444
3bqr4RBDeath-associated protein kinase 3/0.443
3sc13S13-phosphoinositide-dependent protein kinase 12.7.11.10.443
3vetADPnebramycin 5' synthase6.1.2.20.443
3zw3ZW3Phosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.443
4kiq1RAMitogen-activated protein kinase 14/0.443
4lwbQJ8Nitric oxide synthase oxygenase1.14.13.1650.443
4wloNAIMalate dehydrogenase, mitochondrial1.1.1.370.443
1wvxBD4Death-associated protein kinase 12.7.11.10.442
4fob0USALK tyrosine kinase receptor2.7.10.10.442
5aaaVGHALK tyrosine kinase receptor2.7.10.10.442
1uvrBI83-phosphoinositide-dependent protein kinase 12.7.11.10.441
2hxl422Serine/threonine-protein kinase Chk12.7.11.10.441
3dqrJI2Nitric oxide synthase, brain1.14.13.390.441
3f5p741Insulin-like growth factor 1 receptor2.7.10.10.441
4anqVGHALK tyrosine kinase receptor2.7.10.10.441
4anv751Phosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.441
4jsjQJ7Nitric oxide synthase, brain1.14.13.390.441
1k6cMK1Gag-Pol polyprotein3.4.23.160.440
3ufqHW5Nitric oxide synthase, brain1.14.13.390.440
4luxQJ8Nitric oxide synthase, brain1.14.13.390.440