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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
3dzd ADP Transcriptional regulator (NtrC family)

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
3dzd ADPTranscriptional regulator (NtrC family) / 0.901
3m0e ATPTranscriptional regulator (NtrC family) / 0.736
1fnn ADPORC1-type DNA replication protein / 0.716
4hse ADPChaperone protein ClpB / 0.709
3bos CDPRegulatory inactivation of DnaA Hda protein / 0.692
3pfi ADPHolliday junction ATP-dependent DNA helicase RuvB / 0.691
1l8q ADPChromosomal replication initiator protein DnaA / 0.690
2c9o ADPRuvB-like 1 3.6.4.12 0.688
3hu3 AGSTransitional endoplasmic reticulum ATPase 3.6.4.6 0.683
4ko8 AGSTransitional endoplasmic reticulum ATPase 3.6.4.6 0.683
4c30 ANPDNA helicase / 0.682
5ftc ADPTPR domain protein / 0.682
5fm6 ADPRuvB-like helicase / 0.680
2c9c ATPPsp operon transcriptional activator / 0.679
1w5s ADPORC1-type DNA replication protein 2 / 0.676
2c96 ATPPsp operon transcriptional activator / 0.676
1bmf ADPATP synthase subunit alpha, mitochondrial / 0.675
1bmf ADPATP synthase subunit beta, mitochondrial 3.6.3.14 0.675
2gm1 ADPKinesin-like protein KIF11 / 0.674
4qbi AP5Adenylate kinase / 0.672
1w5t ADPORC1-type DNA replication protein 2 / 0.670
5bn3 ADPV-type ATP synthase alpha chain / 0.670
5bn3 ADPNEQ263 / 0.670
2bku GTPGTP-binding nuclear protein Ran / 0.669
2w5a ADPSerine/threonine-protein kinase Nek2 2.7.11.1 0.669
4kln AGSTransitional endoplasmic reticulum ATPase 3.6.4.6 0.669
5aun ADPIron-sulfur cluster carrier protein / 0.667
4dxa GSPRas-related protein Rap-1b / 0.665
1bof GDPGuanine nucleotide-binding protein G(i) subunit alpha-1 / 0.664
2fju GSPRas-related C3 botulinum toxin substrate 1 / 0.664
2xtz GSPGuanine nucleotide-binding protein alpha-1 subunit / 0.664
1in5 ADPHolliday junction ATP-dependent DNA helicase RuvB / 0.663
1zd9 GDPADP-ribosylation factor-like protein 8A / 0.663
3tkl GTPRas-related protein Rab-1A / 0.662
4jky ADPAdenylate kinase / 0.661
1e96 GTPRas-related C3 botulinum toxin substrate 1 / 0.660
2p6d SAHDiphthine synthase / 0.660
1fmw ATPMyosin-2 heavy chain / 0.659
1wc6 TATAdenylate cyclase / 0.659
2x7e ADPKinesin-like protein KIF11 / 0.658
1ny5 ADPTranscriptional regulator (NtrC family) / 0.657
1sdm ADPKinesin heavy chain-like protein / 0.657
3cob ADPKinesin heavy chain-like protein / 0.657
4cf7 ADPAdenylate kinase / 0.657
2pg2 ADPKinesin-like protein KIF11 / 0.656
2uyi ADPKinesin-like protein KIF11 / 0.656
2x2r ADPKinesin-like protein KIF11 / 0.656
2xae ADPKinesin-like protein KIF11 / 0.656
1jx2 ADPMyosin-2 heavy chain / 0.655
3ufg ATPGlycine--tRNA ligase alpha subunit / 0.655
1s3g AP5Adenylate kinase / 0.654
2ax4 ADPBifunctional 3'-phosphoadenosine 5'-phosphosulfate synthase 2 2.7.1.25 0.654
3cph GDPRas-related protein SEC4 / 0.653
3ea0 ATPATPase, ParA family / 0.653
3ea5 GDPGTP-binding nuclear protein Ran / 0.653
3q5d GDPAtlastin-1 3.6.5 0.653
1gwn GTPRho-related GTP-binding protein RhoE / 0.652
4mit GTPRho-related protein racC / 0.651
4xoi GTPTransforming protein RhoA / 0.651
1mez GDPAdenylosuccinate synthetase isozyme 1 / 0.650
1z0f GDPRas-related protein Rab-14 / 0.650
3ieu GDPGTPase Era / 0.650
3tlx ADPAdenylate kinase 2 / 0.650
4itr GDPCell division control protein 42 homolog / 0.650