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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
2vbvFMNRiboflavin kinase2.7.1.161

Complex with similar binding sites

PDB ID HET Uniprot Name EC Number Binding Site
Similarity		 Align
2vbvFMNRiboflavin kinase2.7.1.1611.000
3oqkS52Renin3.4.23.150.472
3h3qH13Collagen type IV alpha-3-binding protein/0.467
1q63AIQQueuine tRNA-ribosyltransferase2.4.2.290.466
1rftPXMPyridoxal kinase2.7.1.350.465
1qv0CZHObelin/0.460
3fhxPXLPyridoxal kinase2.7.1.350.457
2fb8215Serine/threonine-protein kinase B-raf2.7.11.10.456
2olcADPMethylthioribose kinase2.7.1.1000.456
2ea2F77Methionine aminopeptidase 2/0.455
3hxfBD9Geranylgeranyl transferase type-2 subunit beta2.5.1.600.454
2ojg19AMitogen-activated protein kinase 12.7.11.240.453
1an5CB3Thymidylate synthase/0.452
3vt9YI4Vitamin D3 receptor/0.452
2yac937Serine/threonine-protein kinase PLK12.7.11.210.451
3jq6DX1Pteridine reductase, putative/0.451
3own3OWRenin3.4.23.150.451
4g34924Eukaryotic translation initiation factor 2-alpha kinase 32.7.11.10.451
4wx2F6FTryptophan synthase alpha chain/0.451
4wx2F6FTryptophan synthase beta chain4.2.1.200.451
1pr4MTPPurine nucleoside phosphorylase DeoD-type/0.450
1qv1CZHObelin/0.450
4dlcUMPDeoxyuridine triphosphatase, putative/0.450
3jqgAX6Pteridine reductase, putative/0.449
3pqbVGPPutative oxidoreductase/0.449
5d7q4I5NAD-dependent protein deacetylase sirtuin-23.5.10.449
1fdsESTEstradiol 17-beta-dehydrogenase 11.1.1.620.448
1h66RH1NAD(P)H dehydrogenase [quinone] 11.6.5.20.448
1jf0CZHObelin/0.448
4m4821BSodium-dependent dopamine transporter/0.448
1s3wTQTDihydrofolate reductase1.5.1.30.447
3bl7DD1m7GpppX diphosphatase3.6.1.590.447
1el4CTZObelin/0.446
1r00SAHAclacinomycin 10-hydroxylase RdmB4.1.10.446
4b117I1Glycylpeptide N-tetradecanoyltransferase/0.446
3gncQQQGlutaryl-CoA dehydrogenase/0.445
4jbsP52Endoplasmic reticulum aminopeptidase 23.4.110.445
1bwlFMNNADPH dehydrogenase 11.6.99.10.444
1g7uPEP2-dehydro-3-deoxyphosphooctonate aldolase2.5.1.550.444
1s9dAFBCytohesin-2/0.444
1s9dAFBADP-ribosylation factor 1/0.444
2xnpWCXSerine/threonine-protein kinase Nek22.7.11.10.444
3af0GDPPantothenate kinase2.7.1.330.444
4s1iPLPPyridoxal kinase, putative/0.444
1lgtBP3Biphenyl-2,3-diol 1,2-dioxygenase1.13.11.390.443
1m9k7NINitric oxide synthase, endothelial1.14.13.390.443
1uhhCZPAequorin-2/0.443
3c72CX1Geranylgeranyl transferase type-2 subunit beta2.5.1.600.443
1fxfMJIPhospholipase A2, major isoenzyme3.1.1.40.442
1q3aNGHStromelysin-23.4.24.220.442
2vn1FK5Peptidylprolyl isomerase/0.442
2z2w770Wee1-like protein kinase2.7.10.20.442
1lkdBP6Biphenyl-2,3-diol 1,2-dioxygenase1.13.11.390.441
4xsvC5PEthanolamine-phosphate cytidylyltransferase2.7.7.140.441
1kw6BPYBiphenyl-2,3-diol 1,2-dioxygenase1.13.11.390.440
1rpwDIDHTH-type transcriptional regulator QacR/0.440
3cqeP91Wee1-like protein kinase2.7.10.20.440
3frkTQPQdtB/0.440
3hqdANPKinesin-like protein KIF11/0.440
3qeoLLTDeoxycytidine kinase2.7.1.740.440
4bfuZVUPantothenate kinase2.7.1.330.440