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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
4rriA3TProbable threonine--tRNA ligase 26.1.1.3

Complex with similar binding sites

PDB ID HET Uniprot Name EC Number Binding Site
Similarity		 Align
4rriA3TProbable threonine--tRNA ligase 26.1.1.31.000
4rrmA3TProbable threonine--tRNA ligase 26.1.1.30.626
4rrhA3SProbable threonine--tRNA ligase 26.1.1.30.607
4rr9A3SProbable threonine--tRNA ligase 26.1.1.30.605
4rr7A3SProbable threonine--tRNA ligase 26.1.1.30.604
4rr6A3SProbable threonine--tRNA ligase 26.1.1.30.600
4rr8A3SProbable threonine--tRNA ligase 26.1.1.30.591
4rrbA3TProbable threonine--tRNA ligase 26.1.1.30.581
4rrkA3TProbable threonine--tRNA ligase 26.1.1.30.581
4rraA3TProbable threonine--tRNA ligase 26.1.1.30.574
3pd2A3SThreonine--tRNA ligase6.1.1.30.565
4rrlA3SProbable threonine--tRNA ligase 26.1.1.30.564
4rrcA3TProbable threonine--tRNA ligase 26.1.1.30.558
4rrdA3TProbable threonine--tRNA ligase 26.1.1.30.554
2hl0A3SThreonine--tRNA ligase6.1.1.30.550
4rrjA3SProbable threonine--tRNA ligase 26.1.1.30.544
4rrrA3TThreonine--tRNA ligase6.1.1.30.543
2hl1A3SThreonine--tRNA ligase6.1.1.30.524
3pd3A3TThreonine--tRNA ligase6.1.1.30.515
3pd4A3GThreonine--tRNA ligase6.1.1.30.509
2hl2SSAThreonine--tRNA ligase6.1.1.30.499
4rrgA3TThreonine--tRNA ligase6.1.1.30.497
4rrfA3SThreonine--tRNA ligase6.1.1.30.496
3u9fCLMChloramphenicol acetyltransferase2.3.1.280.484
4rrqA3SThreonine--tRNA ligase6.1.1.30.484
2po7CHDFerrochelatase, mitochondrial4.99.1.10.483
3gwfFADCyclohexanone monooxygenase/0.470
3n3zIBMHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.468
5a4kFADNAD(P)H dehydrogenase [quinone] 11.6.5.20.467
4gdy0X1Kynurenine/alpha-aminoadipate aminotransferase, mitochondrial2.6.1.390.465
1d4aFADNAD(P)H dehydrogenase [quinone] 11.6.5.20.463
4r81FMNPredicted NADH dehydrogenase/0.462
4xsvC5PEthanolamine-phosphate cytidylyltransferase2.7.7.140.462
4xymCOAAcyl-CoA synthetase (NDP forming)/0.459
2qd3CHDFerrochelatase, mitochondrial4.99.1.10.457
3pd5TSBThreonine--tRNA ligase6.1.1.30.457
1kqwRTLCellular retinol-binding protein type II/0.456
2qimZEAClass 10 plant pathogenesis-related protein/0.454
3k3hBYEHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.454
3jswJARHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.453
1g63FMNEpidermin decarboxylase4.1.10.450
4g1z0VPVitamin D3 receptor A/0.450
3dyqPCGHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.449
4dc0NDPPutative ketoacyl reductase1.3.10.449
1gg5FADNAD(P)H dehydrogenase [quinone] 11.6.5.20.448
3dynPCGHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.447
3oqkS52Renin3.4.23.150.447
3q44D50M1 family aminopeptidase3.4.110.447
4z5wILE_THR_GLN_TYS_TYSPhytosulfokine receptor 12.7.11.10.447
4zjuNADEnoyl-[acyl-carrier-protein] reductase [NADH]/0.447
5kf1ACOPredicted acetyltransferase/0.447
1y0s331Peroxisome proliferator-activated receptor delta/0.446
2yy2IBMHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.446
3pqbVGPPutative oxidoreductase/0.446
4g2l0WLHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.446
4ge70K5Kynurenine/alpha-aminoadipate aminotransferase, mitochondrial2.6.1.390.446
4qzuRTLRetinol-binding protein 2/0.446
1q23FUAChloramphenicol acetyltransferase2.3.1.280.445
1rfuADPPyridoxal kinase2.7.1.350.445
3jsiWTCHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.445
3sp9IL2Peroxisome proliferator-activated receptor delta/0.445
1bwsNDPGDP-L-fucose synthase/0.444
3c0i3AMPeripheral plasma membrane protein CASK2.7.11.10.444
3jv7NADSecondary alcohol dehydrogenase/0.444
4jseQJ2Nitric oxide synthase, brain1.14.13.390.444
5d7pOCZNAD-dependent protein deacetylase sirtuin-23.5.10.444
1ddtAPUDiphtheria toxin/0.443
2mm3CHOGastrotropin/0.443
3dy85GPHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.443
4fw05KJNitric oxide synthase, brain1.14.13.390.443
4gh6LUOHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.443
4phlPILPhosphodiesterase/0.443
1iolESTEstradiol 17-beta-dehydrogenase 11.1.1.620.442
1vyrFMNPentaerythritol tetranitrate reductase/0.442
3k3ePDBHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.442
3tk3CPZCytochrome P450 2B41.14.14.10.442
3ufwHW0Nitric oxide synthase, brain1.14.13.390.442
2qd4CHDFerrochelatase, mitochondrial4.99.1.10.441
3q43D66M1 family aminopeptidase3.4.110.441
4oztP1AEcdysone receptor, putative/0.441
5kghACOPredicted acetyltransferase/0.441
1kbqFADNAD(P)H dehydrogenase [quinone] 11.6.5.20.440
1sm9NADNAD(P)H-dependent D-xylose reductase1.1.1.3070.440
1zgaHMKIsoflavone 4'-O-methyltransferase/0.440
2lbaCHOFatty acid binding protein 6/0.440
3h3r14HCollagen type IV alpha-3-binding protein/0.440
3p3zP3ZPutative cytochrome P450/0.440
4y8wSTRSteroid 21-hydroxylase/0.440
3emlZMAAdenosine receptor A2a/0.440