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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
1ndeMONEstrogen receptor beta

Complex with similar binding sites

PDB ID HET Uniprot Name EC Number Binding Site
Similarity		 Align
1ndeMONEstrogen receptor beta/1.000
2jf9OHTEstrogen receptor/0.550
2qe4JJ3Estrogen receptor/0.535
1uomPTIEstrogen receptor/0.530
1yinCM3Estrogen receptor/0.514
1xqcAEJEstrogen receptor/0.511
1errRALEstrogen receptor/0.508
2gpvOHTEstrogen-related receptor gamma/0.497
4iaq2GM5-hydroxytryptamine receptor 1B/0.495
2ewpTXFEstrogen-related receptor gamma/0.490
2fszOHTEstrogen receptor beta/0.490
1sj0E4DEstrogen receptor/0.489
2gpuOHTEstrogen-related receptor gamma/0.489
1kyoSMACytochrome b/0.480
2pogWSTEstrogen receptor/0.480
4iui1GQEstrogen receptor/0.478
2b52D42Cyclin-dependent kinase 22.7.11.220.477
5uviZMAAdenosine receptor A2a/0.477
2p7zOHTEstrogen-related receptor gamma/0.476
4iarERM5-hydroxytryptamine receptor 1B/0.476
1xp6AIUEstrogen receptor/0.475
4oj4DIFPeroxisome proliferator-activated receptor gamma/0.475
1ezvSMACytochrome b/0.474
1kb9SMACytochrome b/0.473
5k2aZMAAdenosine receptor A2a/0.467
2c7xNRBCytochrome P450 monooxygenase PikC/0.466
4z9g1Q5Corticotropin-releasing factor receptor 1/0.466
1ia4TQ6Dihydrofolate reductase1.5.1.30.465
4nky3QZSteroid 17-alpha-hydroxylase/17,20 lyase/0.463
4mvfSTUCalcium-dependent protein kinase 22.7.11.10.462
1osvCHCBile acid receptor/0.459
2bj4OHTEstrogen receptor/0.459
5ajqDB8Serine/threonine-protein kinase 102.7.11.10.459
1ia3TQ5Dihydrofolate reductase1.5.1.30.458
4axdANPInositol-pentakisphosphate 2-kinase2.7.1.1580.458
4fjz4FJPhosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.457
4ib4ERM5-hydroxytryptamine receptor 2B/0.457
4qa2SHHHistone deacetylase 83.5.1.980.457
3cx5SMACytochrome b/0.456
3is9AC7Gag-Pol polyprotein2.7.7.490.456
4oxyNADEnoyl-[acyl-carrier-protein] reductase [NADH]1.3.1.90.456
5k2dZMAAdenosine receptor A2a/0.456
1qknRALEstrogen receptor beta/0.453
1u3r338Estrogen receptor beta/0.453
2ibzSMACytochrome b/0.452
2jfaRALEstrogen receptor/0.452
2znnS44Peroxisome proliferator-activated receptor alpha/0.452
3fcoIIGCorticosteroid 11-beta-dehydrogenase isozyme 11.1.1.1460.452
3h0aD30Peroxisome proliferator-activated receptor gamma/0.452
3cxhSMACytochrome b/0.451
4y8wSTRSteroid 21-hydroxylase/0.451
2yitYITSerine/threonine-protein kinase Chk22.7.11.10.450
2a8xFADDihydrolipoyl dehydrogenase1.8.1.40.449
2y03Y01Beta-1 adrenergic receptor/0.449
3sgx0FWDitrans,polycis-undecaprenyl-diphosphate synthase ((2E,6E)-farnesyl-diphosphate specific)2.5.1.310.448
4hgl0YOCasein kinase I isoform gamma-32.7.11.10.447
4q5hANPProtein kinase OspG2.70.447
2ovmAS0Progesterone receptor/0.446
3reyXACAdenosine receptor A2a/0.446
2f4bEHAPeroxisome proliferator-activated receptor gamma/0.445
4k110J9Proto-oncogene tyrosine-protein kinase Src2.7.10.20.445
1vrwNAIEnoyl-ACP reductase/0.444
3apfBMWPhosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.444
3vrwYS5Vitamin D3 receptor/0.444
3vrzVRZTyrosine-protein kinase HCK2.7.10.20.444
5k2cZMAAdenosine receptor A2a/0.444
5jtbZMAAdenosine receptor A2a/0.444
2cig1DGDihydrofolate reductase1.5.1.30.443
4anv751Phosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.443
4em9TCEPeroxisome proliferator-activated receptor gamma/0.443
4iv41GSEstrogen receptor/0.443
4nkvAERSteroid 17-alpha-hydroxylase/17,20 lyase/0.443
5k2bZMAAdenosine receptor A2a/0.443
3emlZMAAdenosine receptor A2a/0.443
1pjkANPCasein kinase II subunit alpha2.7.11.10.442
4g170VNCasein kinase I isoform gamma-32.7.11.10.442
4jvf17XRetinal rod rhodopsin-sensitive cGMP 3',5'-cyclic phosphodiesterase subunit delta/0.442
5iubCLRAdenosine receptor A2a/0.442
1umlFR4Adenosine deaminase3.5.4.40.441
3i0rRT3Gag-Pol polyprotein2.7.7.490.441
3mfsANPPeripheral plasma membrane protein CASK2.7.11.10.441
3slkNDPPolyketide synthase extender module 2/0.441
4l425FIRibosomal protein S6 kinase beta-12.7.11.10.441
1zhzERGOxysterol-binding protein homolog 4/0.440
3ix9MTXDihydrofolate reductase1.5.1.30.440
3p23ADPSerine/threonine-protein kinase/endoribonuclease IRE12.7.11.10.440
3qftNAPNADPH--cytochrome P450 reductase/0.440
4nieNBHNuclear receptor ROR-gamma/0.440