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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
3thyADPDNA mismatch repair protein Msh2

Complex with similar binding sites

PDB ID HET Uniprot Name EC Number Binding Site
Similarity		 Align
3thyADPDNA mismatch repair protein Msh2/1.000
2iyaZIOOleandomycin glycosyltransferase/0.468
4an4DUDPutative glycosyl transferase/0.466
2ekpNAD2-deoxy-D-gluconate 3-dehydrogenase/0.463
1sq5ADPPantothenate kinase2.7.1.330.460
3u9y09LTankyrase-22.4.2.300.460
3tqcADPPantothenate kinase/0.459
2rgoFADAlpha-Glycerophosphate Oxidase/0.458
2ym1FADPhenylacetone monooxygenase1.14.13.920.457
4xrgNADHomospermidine synthase2.5.1.440.456
4blrUTPNTPase P4/0.455
3h86AP5Adenylate kinase/0.454
5dozNDPJamJ/0.454
3wleNAD(R)-specific carbonyl reductase/0.453
4b1jA1RPoly(ADP-ribose) glycohydrolase3.2.1.1430.449
3uozFAD2-oxo-Delta(3)-4,5,5-trimethylcyclopentenylacetyl-CoA monooxygenase1.14.13.1600.448
1rx1NAPDihydrofolate reductase1.5.1.30.447
2jh5895Prothrombin3.4.21.50.446
4eagATP5'-AMP-activated protein kinase subunit gamma-1/0.446
4hle17VPhosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.446
2c1zU2FAnthocyanidin 3-O-glucosyltransferase 22.4.1.1150.445
2geuCOKPantothenate kinase2.7.1.330.445
4anuEM7Phosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.445
5irnADPNucleotide binding oligomerization domain containing 2/0.445
4xqcNADHomospermidine synthase2.5.1.440.444
2gjlFMNNitronate monooxygenase1.13.12.160.443
4dpwAGSMevalonate diphosphate decarboxylase/0.443
5ckuFADL-ornithine N(5)-monooxygenase/0.443
5jlaNADPutative short-chain dehydrogenase/reductase/0.443
1q12ATPMaltose/maltodextrin import ATP-binding protein MalK/0.442
3em0CHDFatty acid-binding protein 6, ileal (gastrotropin)/0.442
1wuaAP8Actin, alpha skeletal muscle/0.441
4wdfA2P2',3'-cyclic-nucleotide 3'-phosphodiesterase3.1.4.370.441
4na4A1RPoly(ADP-ribose) glycohydrolase3.2.1.1430.440