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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
3pkeY10Methionine aminopeptidase 2

Complex with similar binding sites

PDB ID HET Uniprot Name EC Number Binding Site
Similarity		 Align
3pkeY10Methionine aminopeptidase 2/1.000
3iu7FCDMethionine aminopeptidase 2/0.635
3pkaY02Methionine aminopeptidase 2/0.628
3pkdY10Methionine aminopeptidase 2/0.619
3pkbY16Methionine aminopeptidase 2/0.613
4iksTFDMethionine aminopeptidase 1/0.575
2g6pHM2Methionine aminopeptidase 1/0.568
4flkY10Methionine aminopeptidase 1/0.559
4fllYZ6Methionine aminopeptidase 1/0.557
4iktTFVMethionine aminopeptidase 1/0.552
2evcFC3Methionine aminopeptidase/0.548
2evmFC2Methionine aminopeptidase/0.536
3iu8T03Methionine aminopeptidase 2/0.535
2gg8U15Methionine aminopeptidase/0.534
2gg0U11Methionine aminopeptidase/0.530
4ikrPVPMethionine aminopeptidase 1/0.528
4ikuSHXMethionine aminopeptidase 1/0.526
2ggbU17Methionine aminopeptidase/0.525
2nq7HM5Methionine aminopeptidase 1/0.525
4fliY16Methionine aminopeptidase 1/0.523
2q94A04Methionine aminopeptidase/0.517
4hxx1AYMethionine aminopeptidase 1/0.513
2gg3U13Methionine aminopeptidase/0.501
1r5gAO1Methionine aminopeptidase 2/0.498
4fljY08Methionine aminopeptidase 1/0.492
1qzyTDEMethionine aminopeptidase 2/0.490
2p99YE6Methionine aminopeptidase/0.489
1xnzFCDMethionine aminopeptidase/0.487
2gg9U16Methionine aminopeptidase/0.482
2q92B23Methionine aminopeptidase/0.482
2p98YE7Methionine aminopeptidase/0.477
2gg2U12Methionine aminopeptidase/0.476
2q93B21Methionine aminopeptidase/0.476
1c23MPHMethionine aminopeptidase/0.475
1r5hAO2Methionine aminopeptidase 2/0.475
2xuqTZ4Acetylcholinesterase3.1.1.70.472
3d27W29Methionine aminopeptidase/0.461
3pkcY08Methionine aminopeptidase 2/0.461
2q96A18Methionine aminopeptidase/0.459
2j3qTFLAcetylcholinesterase3.1.1.70.457
2jf0HBPAcetylcholinesterase3.1.1.70.456
1q83TZ5Acetylcholinesterase3.1.1.70.451
1odcA8BAcetylcholinesterase3.1.1.70.450
1eveE20Acetylcholinesterase3.1.1.70.449
1q84TZ4Acetylcholinesterase3.1.1.70.449
4ey7E20Acetylcholinesterase3.1.1.70.449
5ao1DG3Deoxynucleoside triphosphate triphosphohydrolase SAMHD13.1.50.449
2oazI96Methionine aminopeptidase 2/0.448
2xq0BESLeukotriene A-4 hydrolase homolog3.3.2.60.448
1amoFMNNADPH--cytochrome P450 reductase/0.447
1ja1FMNNADPH--cytochrome P450 reductase/0.447
3iu9T07Methionine aminopeptidase 2/0.447
1obnASVIsopenicillin N synthase1.21.3.10.445
2wzySQXSoluble acetylcholine receptor/0.445
3cavCI23-oxo-5-beta-steroid 4-dehydrogenase/0.445
1yw8A75Methionine aminopeptidase 2/0.443
1ex75GPGuanylate kinase2.7.4.80.442
2ea2F77Methionine aminopeptidase 2/0.440
3dylPCGHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.440