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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
3cf0 ADP Transitional endoplasmic reticulum ATPase 3.6.4.6

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
3cf0 ADPTransitional endoplasmic reticulum ATPase 3.6.4.6 1.004
3hu3 AGSTransitional endoplasmic reticulum ATPase 3.6.4.6 0.790
3d8b ADPFidgetin-like protein 1 3.6.4 0.788
1e1q ADPATP synthase subunit beta, mitochondrial 3.6.3.14 0.769
1um8 ADPATP-dependent Clp protease ATP-binding subunit ClpX / 0.760
1bmf ADPATP synthase subunit alpha, mitochondrial / 0.745
1bmf ADPATP synthase subunit beta, mitochondrial 3.6.3.14 0.745
2dr3 ADPUPF0273 protein PH0284 / 0.736
3ews ADPATP-dependent RNA helicase DDX19B 3.6.4.13 0.727
2ce7 ADPATP-dependent zinc metalloprotease FtsH / 0.725
1e79 ADPATP synthase subunit alpha, mitochondrial / 0.717
1e79 ADPATP synthase subunit beta, mitochondrial 3.6.3.14 0.717
2jj2 ADPATP synthase subunit alpha, mitochondrial / 0.715
2jj2 ADPATP synthase subunit beta, mitochondrial 3.6.3.14 0.715
1in5 ADPHolliday junction ATP-dependent DNA helicase RuvB / 0.713
2axn ADP6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase 3 / 0.713
1h8h ADPATP synthase subunit alpha, mitochondrial / 0.711
1h8h ADPATP synthase subunit beta, mitochondrial 3.6.3.14 0.711
1njf ADPDNA polymerase III subunit tau 2.7.7.7 0.711
2cea ADPATP-dependent zinc metalloprotease FtsH / 0.711
3zia ADPATP synthase subunit beta, mitochondrial 3.6.3.14 0.706
3mle ADPATP-dependent dethiobiotin synthetase BioD 6.3.3.3 0.703
1e32 ADPTransitional endoplasmic reticulum ATPase 3.6.4.6 0.702
4ko8 AGSTransitional endoplasmic reticulum ATPase 3.6.4.6 0.702
3hu2 AGSTransitional endoplasmic reticulum ATPase 3.6.4.6 0.699
2whx ADPGenome polyprotein 3.4.21.91 0.698
3tif ADPUncharacterized ABC transporter ATP-binding protein MJ0796 / 0.698
2xae ADPKinesin-like protein KIF11 / 0.697
3l9h ADPKinesin-like protein KIF11 / 0.697
1s3s ADPTransitional endoplasmic reticulum ATPase 3.6.4.6 0.696
3hu1 AGSTransitional endoplasmic reticulum ATPase 3.6.4.6 0.693
4lj7 MNTChaperone protein ClpB / 0.692
1sxj AGSReplication factor C subunit 1 / 0.689
4a28 ADPKinesin-like protein KIF11 / 0.688
3qpv ADP6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase 3 2.7.1.105 0.686
1nbm ADPATP synthase subunit beta, mitochondrial 3.6.3.14 0.684
3pcr GTPADP-ribosylation factor 6 / 0.684
1mma ADPMyosin-2 heavy chain / 0.682
1njf AGSDNA polymerase III subunit tau 2.7.7.7 0.681
2pg2 ADPKinesin-like protein KIF11 / 0.681
3kkq GDPRas-related protein M-Ras / 0.680
4b7b ADPKinesin-like protein KIF11 / 0.680
1ytm ATPPhosphoenolpyruvate carboxykinase (ATP) / 0.679
3t1t GDPProbable gliding protein mglA / 0.679
2d4h 5GPGuanylate-binding protein 1 / 0.677
5fl3 ADPPili retraction protein PilT / 0.677
2uyi ADPKinesin-like protein KIF11 / 0.676
4kod ADPTransitional endoplasmic reticulum ATPase 3.6.4.6 0.676
4o2r GDPGTP-binding protein Rheb / 0.676
2v7q ADPATP synthase subunit beta, mitochondrial 3.6.3.14 0.672
1yrs ADPKinesin-like protein KIF11 / 0.671
2x2r ADPKinesin-like protein KIF11 / 0.671
1mmg AGSMyosin-2 heavy chain / 0.670
4hse ADPChaperone protein ClpB / 0.670
3r9i ADPSeptum site-determining protein MinD / 0.668
4m0l GDPTranslation initiation factor 2 subunit gamma / 0.668
4tq9 GDPGTPase KRas / 0.668
4q02 GDPGTPase KRas / 0.667
4idp GNPAtlastin-1 3.6.5 0.666
4l9s GDPGTPase HRas / 0.666
4lv6 GDPGTPase KRas / 0.666
4epw GDPGTPase KRas / 0.665
4lpk GDPGTPase KRas / 0.665
1v8k ANPKinesin-like protein KIF2C / 0.664
3kud GDPGTPase HRas / 0.664
4ql3 GDPGTPase KRas / 0.664
4ldj GDPGTPase KRas / 0.663
4q03 GDPGTPase KRas / 0.663
1d5c GDPGTPase (Rab6) / 0.662
1s3g AP5Adenylate kinase / 0.662
2fna ADPUncharacterized protein / 0.662
3qbv GDPCell division control protein 42 homolog / 0.662
2i1v ADP6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase 3 2.7.1.105 0.661
3tkl GTPRas-related protein Rab-1A / 0.661
4epx GDPGTPase KRas / 0.661
1t91 GTPRas-related protein Rab-7a / 0.660
1z0f GDPRas-related protein Rab-14 / 0.660
4c30 ANPDNA helicase / 0.660
1j7k ATPHolliday junction ATP-dependent DNA helicase RuvB / 0.659
4d81 ADPAAA ATPase, central domain protein / 0.659
1sdm ADPKinesin heavy chain-like protein / 0.658
2iut AGSDNA translocase FtsK / 0.658
3k1j ADPATP-dependent protease Lon / 0.658
4jky ADPAdenylate kinase / 0.658
1x1r GDPRas-related protein M-Ras / 0.657
2xtz GSPGuanine nucleotide-binding protein alpha-1 subunit / 0.657
1mab ATPATP synthase subunit alpha, mitochondrial / 0.656
5dac AGSUncharacterized protein / 0.656
1im2 ADPATP-dependent protease ATPase subunit HslU / 0.655
3wyf GTPGTP-binding nuclear protein / 0.655
1fp6 ADPNitrogenase iron protein 1 1.18.6.1 0.653
1ofh ADPATP-dependent protease ATPase subunit HslU / 0.653
4l8g GDPGTPase KRas / 0.652
4pfp ADPUnconventional myosin-VI / 0.652
2fl2 ADPKinesin-like protein KIF11 / 0.651
4l16 ADPFidgetin-like protein 1 3.6.4 0.651
5aun ADPIron-sulfur cluster carrier protein / 0.651
2gm1 ADPKinesin-like protein KIF11 / 0.650
3x1w GDPRas-related protein Rap-1b / 0.650
4r43 GDPPhosphoenolpyruvate carboxykinase [GTP] / 0.650