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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
3ccc7ACDipeptidyl peptidase 4

Complex with similar binding sites

PDB ID HET Uniprot Name EC Number Binding Site
Similarity		 Align
3ccc7ACDipeptidyl peptidase 4/1.000
3g0bT22Dipeptidyl peptidase 4/0.664
3opmLUIDipeptidyl peptidase 4/0.661
3g0dXIHDipeptidyl peptidase 4/0.648
3g0gRUMDipeptidyl peptidase 4/0.638
4g1f0WGDipeptidyl peptidase 4/0.626
2aj8SC3Dipeptidyl peptidase 4/0.580
3qbjNXZDipeptidyl peptidase 4/0.561
3g0cRUFDipeptidyl peptidase 4/0.551
2rgu356Dipeptidyl peptidase 4/0.540
3vjkM51Dipeptidyl peptidase 4/0.534
3f8sPF2Dipeptidyl peptidase 4/0.516
3vjlW94Dipeptidyl peptidase 4/0.506
3ccbB2YDipeptidyl peptidase 4/0.492
4q0kGA3Phytohormone-binding protein/0.476
4rvgTYDD-mycarose 3-C-methyltransferase/0.475
2x92X92Angiotensin-converting enzyme3.4.15.10.473
2xuoTZ4Acetylcholinesterase3.1.1.70.471
3e34ED1Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha/0.471
3e34ED1Protein farnesyltransferase subunit beta2.5.1.580.471
2j3qTFLAcetylcholinesterase3.1.1.70.470
1n0sFLUBilin-binding protein/0.463
2f3rG5PGuanylate kinase2.7.4.80.462
2gesCOKPantothenate kinase2.7.1.330.462
2an9GDPGuanylate kinase2.7.4.80.460
3jqpA2PFerredoxin--NADP reductase, apicoplast/0.459
3tr05GPGuanylate kinase/0.459
4c13UMLUDP-N-acetylmuramoyl-L-alanyl-D-glutamate--L-lysine ligase/0.458
1aa6MGDFormate dehydrogenase H1.1.99.330.452
1z44FMNNADPH dehydrogenase/0.452
1jil485Tyrosine--tRNA ligase/0.451
3koyZ97D-ornithine 4,5-aminomutase subunit beta/0.451
3af0GDPPantothenate kinase2.7.1.330.450
2zueANPArginine--tRNA ligase6.1.1.190.449
2q1wNADPutative nucleotide sugar epimerase/ dehydratase/0.448
3fhyATPPyridoxal kinase2.7.1.350.448
3v0o4GWHisto-blood group ABO system transferase/0.448
3v0p4GWHisto-blood group ABO system transferase/0.448
4gv08MEPoly [ADP-ribose] polymerase 32.4.2.300.448
4rvfTYDD-mycarose 3-C-methyltransferase/0.448
1nuqNXXNicotinamide/nicotinic acid mononucleotide adenylyltransferase 3/0.447
3af1GDPPantothenate kinase2.7.1.330.447
5kwvANPPantothenate synthetase/0.447
1nuuNADNicotinamide/nicotinic acid mononucleotide adenylyltransferase 3/0.446
2xukTZ5Acetylcholinesterase3.1.1.70.446
3q9bB3NAcetylpolyamine amidohydrolase/0.446
2wnsOMPUridine 5'-monophosphate synthase2.4.2.100.445
3mauEXTPutative sphingosine-1-phosphate lyase/0.444
3ukfGDUUDP-galactopyranose mutase/0.444
4gdy0X1Kynurenine/alpha-aminoadipate aminotransferase, mitochondrial2.6.1.390.444
4j4nD44Peptidylprolyl isomerase/0.444
5dldUD1UDP-N-Acetylglucosamine 2-epimerase/0.444
1ja0FMNNADPH--cytochrome P450 reductase/0.443
2gevCOKPantothenate kinase2.7.1.330.443
2xugTZ4Acetylcholinesterase3.1.1.70.443
4f1l0RYPoly [ADP-ribose] polymerase 142.4.2.300.443
2c12FADNitroalkane oxidase1.7.3.10.442
2x95X95Angiotensin-converting enzyme3.4.15.10.442
4drjRAPSerine/threonine-protein kinase mTOR2.7.11.10.442
4drjRAPPeptidyl-prolyl cis-trans isomerase FKBP45.2.1.80.442
5ao1DG3Deoxynucleoside triphosphate triphosphohydrolase SAMHD13.1.50.442
5cflC2EStimulator of interferon genes protein/0.442
2a5hSAML-lysine 2,3-aminomutase5.4.3.20.441
2c20NADUDP-glucose 4-epimerase/0.441
2gc8885Polyprotein/0.441
4uthFMNXenobiotic reductase/0.441
4nauAGSPhosphopantetheine adenylyltransferase/0.440