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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
2npi ATP mRNA cleavage and polyadenylation factor CLP1

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
2npi ATPmRNA cleavage and polyadenylation factor CLP1 / 1.086
4oi4 ATPmRNA cleavage and polyadenylation factor CLP1 / 0.791
4c0b ATPmRNA cleavage and polyadenylation factor CLP1 / 0.785
4cvl ACPUDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase / 0.690
4v02 ATPSite-determining protein / 0.690
3lbh GNPGTPase HRas / 0.683
3oeh ANPATP synthase subunit alpha, mitochondrial / 0.682
1os1 ATPPhosphoenolpyruvate carboxykinase (ATP) / 0.681
1bmf ANPATP synthase subunit alpha, mitochondrial / 0.679
1bmf ANPATP synthase subunit beta, mitochondrial 3.6.3.14 0.679
3kko GNPRas-related protein M-Ras / 0.679
1zio AP5Adenylate kinase / 0.675
4oi2 ADPProtein clpf-1 / 0.674
1cs4 GSPGuanine nucleotide-binding protein G(s) subunit alpha isoforms short / 0.671
2olr ATPPhosphoenolpyruvate carboxykinase (ATP) / 0.671
1khb GCPPhosphoenolpyruvate carboxykinase, cytosolic [GTP] 4.1.1.32 0.669
2jlr ANPGenome polyprotein 3.4.21.91 0.668
3rab GNPRas-related protein Rab-3A / 0.668
3c16 GSPGuanine nucleotide-binding protein G(s) subunit alpha isoforms short / 0.667
2bc9 GNPGuanylate-binding protein 1 / 0.665
3nbz GTPGTP-binding nuclear protein Ran / 0.665
3oee ANPATP synthase subunit alpha, mitochondrial / 0.665
3oee ANPATP synthase subunit beta, mitochondrial 3.6.3.14 0.665
4nh0 ATPESX secretion system protein EccC / 0.664
1fmw ATPMyosin-2 heavy chain / 0.661
1w5t ANPORC1-type DNA replication protein 2 / 0.661
2gvd GSPGuanine nucleotide-binding protein G(s) subunit alpha isoforms short / 0.661
1u0h GSPGuanine nucleotide-binding protein G(s) subunit alpha isoforms short / 0.660
3dva TPWPyruvate dehydrogenase E1 component subunit alpha 1.2.4.1 0.659
3dva TPWPyruvate dehydrogenase E1 component subunit beta 1.2.4.1 0.659
4bec ATPType I restriction enzyme EcoR124II R protein 3.1.21.3 0.659
3tjz GNPADP-ribosylation factor 1 / 0.658
4xoi GTPTransforming protein RhoA / 0.658
3ddc GNPGTPase HRas / 0.657
5jlj GNPGTP-binding nuclear protein Ran / 0.657
1ow3 GDPTransforming protein RhoA / 0.656
2hld ANPATP synthase subunit alpha, mitochondrial / 0.656
2hld ANPATP synthase subunit beta, mitochondrial 3.6.3.14 0.656
3dt2 GTPPhosphoenolpyruvate carboxykinase, cytosolic [GTP] 4.1.1.32 0.656
3dt4 GTPPhosphoenolpyruvate carboxykinase, cytosolic [GTP] 4.1.1.32 0.656
5ftc ADPTPR domain protein / 0.656
1aq2 ATPPhosphoenolpyruvate carboxykinase (ATP) / 0.655
1svl ADPLarge T antigen 3.6.4 0.655
4qm6 GTPMetallophosphoesterase / 0.655
1ni4 TPPPyruvate dehydrogenase E1 component subunit alpha, somatic form, mitochondrial 1.2.4.1 0.654
1ni4 TPPPyruvate dehydrogenase E1 component subunit beta, mitochondrial 1.2.4.1 0.654
3fvq ATPFe(3+) ions import ATP-binding protein FbpC / 0.654
1uad GNPRas-related protein Ral-A / 0.653
3ryh GTPTubulin alpha chain / 0.653
4pan GDPGuanine nucleotide-binding protein G(i) subunit alpha-1 / 0.653
1w0k ADPATP synthase subunit alpha, mitochondrial / 0.651
1w0k ADPATP synthase subunit beta, mitochondrial 3.6.3.14 0.651
4cei ANPATP-dependent helicase/deoxyribonuclease subunit B 3.1 0.651
4yj2 GTPTubulin alpha-1B chain / 0.651
1azt GSPGuanine nucleotide-binding protein G(s) subunit alpha isoforms short / 0.650
3adc ANPL-seryl-tRNA(Sec) kinase 2.7.1.164 0.650
3cx8 GSPGuanine nucleotide-binding protein subunit alpha-13 / 0.650
4jsy GTPMetallophosphoesterase / 0.650