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sc-PDB

An Annotated Database of Druggable Binding Sites from the Protein DataBank

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Distribution of Interaction pattern similarity measured by Grim
You can zoom onto the graph by using the mouse to make a selection

Binding Modes are compared using Grim.
For more information, please see the following publication: Desaphy J. et al. Encoding Protein-Ligand Interaction Patterns in Fingerprints and Graphs J. Chem. Inf. Model., 2013, 53 (3), pp 623-637
Binding modes are considered as similar when the similarity value is greater than 0.65


Reference Protein Data Bank Entry :
PDB ID HET Uniprot Name EC Number
3w5r LOA Vitamin D3 receptor

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
3w5r LOAVitamin D3 receptor / 1.285
3w5t LHPVitamin D3 receptor / 1.217
3w5q 3KLVitamin D3 receptor / 1.119
4q0a 4OAVitamin D3 receptor A / 1.025
1efz PRFQueuine tRNA-ribosyltransferase 2.4.2.29 0.744
1g7u PEP2-dehydro-3-deoxyphosphooctonate aldolase 2.5.1.55 0.744
1v2h GUNPurine nucleoside phosphorylase 2.4.2.1 0.744
2puc GUNHTH-type transcriptional repressor PurR / 0.744
4e5i 0N9Polymerase acidic protein / 0.744
4ek9 EP4Histone-lysine N-methyltransferase, H3 lysine-79 specific 2.1.1.43 0.744
1ot7 IU5Bile acid receptor / 0.736
2jn3 JN3Fatty acid-binding protein, liver / 0.730
3w5p 4OAVitamin D3 receptor / 0.727
4ple CPSNuclear receptor subfamily 5 group A member 2 / 0.721
2b04 CHOPhospholipase A2, major isoenzyme 3.1.1.4 0.710
1xu7 CPSCorticosteroid 11-beta-dehydrogenase isozyme 1 1.1.1.146 0.706
2qd4 CHDFerrochelatase, mitochondrial 4.99.1.1 0.704
4fhh 0U3Vitamin D3 receptor A / 0.702
2rlc CHDCholoylglycine hydrolase 3.5.1.24 0.698
2hrc CHDFerrochelatase, mitochondrial 4.99.1.1 0.697
1y9r 1CAMineralocorticoid receptor / 0.694
2aa7 1CAMineralocorticoid receptor / 0.687
2azz TCHPhospholipase A2, major isoenzyme 3.1.1.4 0.679
2pnu ENMAndrogen receptor / 0.678
3vt3 VDXVitamin D3 receptor / 0.677
2ab2 SNLMineralocorticoid receptor / 0.673
1yb1 AOIEstradiol 17-beta-dehydrogenase 11 1.1.1.62 0.671
1f5f DHTSex hormone-binding globulin / 0.666
2bjf DXCCholoylglycine hydrolase 3.5.1.24 0.666
3cot STR3-oxo-5-beta-steroid 4-dehydrogenase / 0.666
3uzz ASD3-oxo-5-beta-steroid 4-dehydrogenase / 0.665
4a84 DXCMajor pollen allergen Bet v 1-A / 0.664
1zhy CLROxysterol-binding protein homolog 4 / 0.663
3f3y 4OABile salt sulfotransferase 2.8.2.14 0.662
3k9v CPS1,25-dihydroxyvitamin D(3) 24-hydroxylase, mitochondrial / 0.662
1kdk DHTSex hormone-binding globulin / 0.661
1zhw HC2Oxysterol-binding protein homolog 4 / 0.661
2aax PDNMineralocorticoid receptor / 0.661
2aba STRPentaerythritol tetranitrate reductase / 0.661
1gs4 ZK5Androgen receptor / 0.660
1ozq PRFQueuine tRNA-ribosyltransferase 2.4.2.29 0.660
1p0e PRFQueuine tRNA-ribosyltransferase 2.4.2.29 0.660
1ulb GUNPurine nucleoside phosphorylase 2.4.2.1 0.660
2pwu GUNQueuine tRNA-ribosyltransferase 2.4.2.29 0.660
2z1x PRFQueuine tRNA-ribosyltransferase 2.4.2.29 0.660
3bld PRFQueuine tRNA-ribosyltransferase 2.4.2.29 0.660
4e5f 0N7Polymerase acidic protein / 0.660
4gcx PRFQueuine tRNA-ribosyltransferase 2.4.2.29 0.660
4h7z GUNQueuine tRNA-ribosyltransferase 2.4.2.29 0.660
4hqv QEIQueuine tRNA-ribosyltransferase 2.4.2.29 0.660
4hvx QEIQueuine tRNA-ribosyltransferase 2.4.2.29 0.660
2j7x ESTEstrogen receptor beta / 0.659
4at2 ASDPossible succinate dehydrogenase / 0.658
4ia1 BIVVitamin D3 receptor A / 0.658
1i5r HYCEstradiol 17-beta-dehydrogenase 1 1.1.1.62 0.657
2hcd BIVVitamin D3 receptor A / 0.656
2pit DHTAndrogen receptor / 0.655
2oax SNLMineralocorticoid receptor / 0.654
1p8d CO1Oxysterols receptor LXR-beta / 0.652
4oed DHTAndrogen receptor / 0.652
3vtd TKDVitamin D3 receptor / 0.651
4j6c STRCytochrome P450 monooxygenase / 0.651
4pxm ESTEstrogen receptor / 0.651
3w0j T08Vitamin D3 receptor / 0.650