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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
3f8sPF2Dipeptidyl peptidase 4

Complex with similar cavities

PDB ID HET Uniprot Name EC Number Cavity
Similarity		 Align
3f8sPF2Dipeptidyl peptidase 4/1.000
3vjlW94Dipeptidyl peptidase 4/0.614
3vjkM51Dipeptidyl peptidase 4/0.612
3qbjNXZDipeptidyl peptidase 4/0.594
3ccbB2YDipeptidyl peptidase 4/0.559
3opmLUIDipeptidyl peptidase 4/0.549
4ffw715Dipeptidyl peptidase 4/0.543
4g1f0WGDipeptidyl peptidase 4/0.537
4a5sN7FDipeptidyl peptidase 4/0.535
3g0bT22Dipeptidyl peptidase 4/0.534
3ccc7ACDipeptidyl peptidase 4/0.531
2rgu356Dipeptidyl peptidase 4/0.522
2aj8SC3Dipeptidyl peptidase 4/0.499
3g0gRUMDipeptidyl peptidase 4/0.498
3g0dXIHDipeptidyl peptidase 4/0.486
3nubUD0UDP-2-acetamido-2-deoxy-3-oxo-D-glucuronate aminotransferase2.6.1.980.479
3dzkNMNADP-ribosyl cyclase/cyclic ADP-ribose hydrolase 13.2.2.60.475
4bfvZVVPantothenate kinase2.7.1.330.469
2xugTZ4Acetylcholinesterase3.1.1.70.468
4rvfTYDD-mycarose 3-C-methyltransferase/0.462
2oaeAILDipeptidyl peptidase 4/0.461
2xjeU5PCytosolic purine 5'-nucleotidase3.1.3.50.460
2xuoTZ4Acetylcholinesterase3.1.1.70.460
2a3bCFFEndochitinase B13.2.1.140.457
3dziRGTADP-ribosyl cyclase/cyclic ADP-ribose hydrolase 13.2.2.60.456
4hmz18TdTDP-4-dehydro-6-deoxyglucose 3-epimerase5.1.3.270.456
4i1c1BEBeta-secretase 13.4.23.460.456
4arbC57Acetylcholinesterase3.1.1.70.454
4qg1DTPDeoxynucleoside triphosphate triphosphohydrolase SAMHD13.1.50.454
1tllFMNNitric oxide synthase, brain1.14.13.390.453
1toiHCIAspartate aminotransferase2.6.1.10.452
3h3t16HCollagen type IV alpha-3-binding protein/0.452
3dmeFADPutative conserved exported protein/0.451
3h3qH13Collagen type IV alpha-3-binding protein/0.451
4gdcNDPUDP-galactopyranose mutase/0.451
4rxqDUTDeoxynucleoside triphosphate triphosphohydrolase SAMHD13.1.50.450
4to2DGTDeoxynucleoside triphosphate triphosphohydrolase SAMHD13.1.50.450
2geuCOKPantothenate kinase2.7.1.330.449
3e34ED1Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha/0.449
3e34ED1Protein farnesyltransferase subunit beta2.5.1.580.449
2xuqTZ4Acetylcholinesterase3.1.1.70.448
3wqmB29Diterpene synthase3.1.7.80.446
4tvj09LPoly [ADP-ribose] polymerase 22.4.2.300.446
2wzySQXSoluble acetylcholine receptor/0.445
4awsFMNNADH:flavin oxidoreductase Sye1/0.445
2xufTZ4Acetylcholinesterase3.1.1.70.444
3hdyGDUUDP-galactopyranose mutase/0.444
4j7hTRHPCZA361.3/0.444
4kq6DLZ6,7-dimethyl-8-ribityllumazine synthase/0.444
3oe9ITDC-X-C chemokine receptor type 4/0.444
1q84TZ4Acetylcholinesterase3.1.1.70.443
2q92B23Methionine aminopeptidase/0.443
3aezGDPPantothenate kinase2.7.1.330.443
4to1DCPDeoxynucleoside triphosphate triphosphohydrolase SAMHD13.1.50.443
2a58RBF6,7-dimethyl-8-ribityllumazine synthase2.5.1.780.442
1x1dSAHC-20 methyltransferase/0.441
3h3r14HCollagen type IV alpha-3-binding protein/0.441
3ou2SAHSAM-dependent methyltransferase/0.441
1e66HUXAcetylcholinesterase3.1.1.70.440
1rkwPNTHTH-type transcriptional regulator QacR/0.440
2qimZEAClass 10 plant pathogenesis-related protein/0.440
2vatCOAAcetyl-CoA--deacetylcephalosporin C acetyltransferase2.3.1.1750.440
4eb7PLPCysteine desulfurase IscS 2/0.440