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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
4e07 ACP Plasmid partitioning protein ParF

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
4e07 ACPPlasmid partitioning protein ParF / 1.244
5bn3 ADPV-type ATP synthase alpha chain / 0.731
5bn3 ADPNEQ263 / 0.731
4xvu ATPATPase GET3 / 0.728
4cf7 ADPAdenylate kinase / 0.711
2osb AP5Adenylate kinase / 0.710
1e79 ADPATP synthase subunit alpha, mitochondrial / 0.707
1e79 ADPATP synthase subunit beta, mitochondrial 3.6.3.14 0.707
2eu8 AP5Adenylate kinase / 0.707
1e1q ADPATP synthase subunit beta, mitochondrial 3.6.3.14 0.706
1zcb GDPGuanine nucleotide-binding protein subunit alpha-13 / 0.699
1cul GSPGuanine nucleotide-binding protein G(s) subunit alpha isoforms short / 0.698
4ql3 GDPGTPase KRas / 0.697
1e96 GTPRas-related C3 botulinum toxin substrate 1 / 0.696
4o2r GDPGTP-binding protein Rheb / 0.696
1got GDPGuanine nucleotide-binding protein G(t) subunit alpha-1 / 0.695
4ma4 ADP6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase 3 2.7.1.105 0.693
1h65 GDPTranslocase of chloroplast 34 3.6.5 0.692
2v7q ADPATP synthase subunit beta, mitochondrial 3.6.3.14 0.691
4ike ADPAdenylate kinase / 0.691
1jx2 ADPMyosin-2 heavy chain / 0.690
4db1 ANPMyosin-7 / 0.688
4v02 ATPSite-determining protein / 0.688
1bmf ADPATP synthase subunit alpha, mitochondrial / 0.685
1bmf ADPATP synthase subunit beta, mitochondrial 3.6.3.14 0.685
3ews ADPATP-dependent RNA helicase DDX19B 3.6.4.13 0.685
3pfi ADPHolliday junction ATP-dependent DNA helicase RuvB / 0.685
4e09 ACPPlasmid partitioning protein ParF / 0.685
3a4l ANPL-seryl-tRNA(Sec) kinase 2.7.1.164 0.684
4q02 GDPGTPase KRas / 0.682
4jl6 ADPAdenylate kinase / 0.681
4jld ADPAdenylate kinase / 0.679
4l8g GDPGTPase KRas / 0.679
2fna ADPUncharacterized protein / 0.676
2jj1 ADPATP synthase subunit alpha, mitochondrial / 0.675
2jj1 ADPATP synthase subunit beta, mitochondrial 3.6.3.14 0.675
2i1v ADP6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase 3 2.7.1.105 0.673
4gp6 ADPMetallophosphoesterase / 0.673
4pjk ADPMyosin-2 heavy chain / 0.673
4l9s GDPGTPase HRas / 0.672
4pfp ADPUnconventional myosin-VI / 0.672
1gil GSPGuanine nucleotide-binding protein G(i) subunit alpha-1 / 0.671
2jiz ADPATP synthase subunit beta, mitochondrial 3.6.3.14 0.671
2p2l GDPRas-related C3 botulinum toxin substrate 1 / 0.670
4rz3 ADPSite-determining protein / 0.670
4z54 GDPNeuronal-specific septin-3 / 0.670
3kkq GDPRas-related protein M-Ras / 0.668
3fmo ADPATP-dependent RNA helicase DDX19B 3.6.4.13 0.667
1sq5 ADPPantothenate kinase 2.7.1.33 0.664
3tlx ADPAdenylate kinase 2 / 0.664
3tqc ADPPantothenate kinase / 0.664
4pk4 ADPUnconventional myosin-VI / 0.664
2bbw GP5Adenylate kinase 4, mitochondrial / 0.663
3ea0 ATPATPase, ParA family / 0.663
3onw GDPGuanine nucleotide-binding protein G(i) subunit alpha-1 / 0.663
4dxa GSPRas-related protein Rap-1b / 0.663
1l8q ADPChromosomal replication initiator protein DnaA / 0.662
2jj2 ADPATP synthase subunit alpha, mitochondrial / 0.662
2jj2 ADPATP synthase subunit beta, mitochondrial 3.6.3.14 0.662
1mmg AGSMyosin-2 heavy chain / 0.660
4jky ADPAdenylate kinase / 0.660
4ko8 AGSTransitional endoplasmic reticulum ATPase 3.6.4.6 0.660
1fp6 ADPNitrogenase iron protein 1 1.18.6.1 0.659
1w5t ADPORC1-type DNA replication protein 2 / 0.658
4qos ADPPsp operon transcriptional activator / 0.658
4qxa GTPRas-related protein Rab-9A / 0.658
5aun ADPIron-sulfur cluster carrier protein / 0.658
1ank ANPAdenylate kinase / 0.656
2gm1 ADPKinesin-like protein KIF11 / 0.656
4pjj ADPUnconventional myosin-VI / 0.656
1z0d GDPRas-related protein Rab-5C / 0.655
3zvm ADPBifunctional polynucleotide phosphatase/kinase 2.7.1.78 0.655
4hse ADPChaperone protein ClpB / 0.655
3qfc NAPNADPH--cytochrome P450 reductase / 0.653
4jl5 ADPAdenylate kinase / 0.652
4asu ADPATP synthase subunit alpha, mitochondrial / 0.651
4kvg GTPRas-related protein Rap-1A / 0.651
4qbh AP5Adenylate kinase / 0.651
1nbm ADPATP synthase subunit beta, mitochondrial 3.6.3.14 0.650