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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
1l2t ATP Uncharacterized ABC transporter ATP-binding protein MJ0796

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
1l2t ATPUncharacterized ABC transporter ATP-binding protein MJ0796 / 1.128
3fvq ATPFe(3+) ions import ATP-binding protein FbpC / 0.883
1xef ATPAlpha-hemolysin translocation ATP-binding protein HlyB / 0.862
2fgj ATPAlpha-hemolysin translocation ATP-binding protein HlyB / 0.859
4ki0 ANPMaltose/maltodextrin import ATP-binding protein MalK / 0.855
2fgk ATPAlpha-hemolysin translocation ATP-binding protein HlyB / 0.842
1q12 ATPMaltose/maltodextrin import ATP-binding protein MalK / 0.832
3vx4 ATPPutative ABC transporter, ATP-binding protein ComA / 0.817
2r6g ATPMaltose/maltodextrin import ATP-binding protein MalK / 0.813
3m0e ATPTranscriptional regulator (NtrC family) / 0.779
4jsy GTPMetallophosphoesterase / 0.777
3tkl GTPRas-related protein Rab-1A / 0.770
3vhx GTPADP-ribosylation factor 6 / 0.763
4qxa GTPRas-related protein Rab-9A / 0.757
1ytm ATPPhosphoenolpyruvate carboxykinase (ATP) / 0.756
4pao GSPGuanine nucleotide-binding protein G(i) subunit alpha-1 / 0.754
1wa5 GTPGTP-binding nuclear protein Ran / 0.753
4qm6 GTPMetallophosphoesterase / 0.753
1gil GSPGuanine nucleotide-binding protein G(i) subunit alpha-1 / 0.752
1gwn GTPRho-related GTP-binding protein RhoE / 0.752
1r0z ATPCystic fibrosis transmembrane conductance regulator / 0.743
1t91 GTPRas-related protein Rab-7a / 0.740
1azt GSPGuanine nucleotide-binding protein G(s) subunit alpha isoforms short / 0.739
2gcp GSPRho-related GTP-binding protein RhoC / 0.739
1w1w AGSStructural maintenance of chromosomes protein 1 / 0.738
1kmq GNPTransforming protein RhoA / 0.735
2xtz GSPGuanine nucleotide-binding protein alpha-1 subunit / 0.735
1aq2 ATPPhosphoenolpyruvate carboxykinase (ATP) / 0.731
4xsg GSPTransforming protein RhoA / 0.728
4ol0 GTPGTP-binding nuclear protein Ran / 0.727
2py7 ATPPhosphoenolpyruvate carboxykinase (ATP) / 0.726
1cs4 GSPGuanine nucleotide-binding protein G(s) subunit alpha isoforms short / 0.725
3hu3 AGSTransitional endoplasmic reticulum ATPase 3.6.4.6 0.719
4d0l GSPRas-related protein Rab-11A / 0.717
4k81 GTPGTPase HRas / 0.716
4tl7 ATPCircadian clock protein kinase KaiC 2.7.11.1 0.715
2xau ADPPre-mRNA-splicing factor ATP-dependent RNA helicase PRP43 3.6.4.13 0.714
4g0n GNPGTPase HRas / 0.713
1svm ATPLarge T antigen 3.6.4 0.711
3qe0 GDPGuanine nucleotide-binding protein G(i) subunit alpha-1 / 0.711
1a2b GSPTransforming protein RhoA / 0.710
3wyg GTPGTP-binding nuclear protein GSP1/CNR1 / 0.707
4bzq ADPBifunctional enzyme CysN/CysC 2.7.1.25 0.705
1lfd GNPGTPase HRas / 0.704
1fmw ATPMyosin-2 heavy chain / 0.703
5dac AGSUncharacterized protein / 0.703
1u0h GSPGuanine nucleotide-binding protein G(s) subunit alpha isoforms short / 0.699
4yer ADPAntibiotic ABC transporter, ATP-binding protein, putative / 0.699
3tlx ADPAdenylate kinase 2 / 0.698
2fju GSPRas-related C3 botulinum toxin substrate 1 / 0.696
4ymu ATPABC-type polar amino acid transport system, ATPase component / 0.696
1ayl ATPPhosphoenolpyruvate carboxykinase (ATP) / 0.695
2ov2 GCPRas-related C3 botulinum toxin substrate 3 / 0.693
1w0k ADPATP synthase subunit alpha, mitochondrial / 0.690
1w0k ADPATP synthase subunit beta, mitochondrial 3.6.3.14 0.690
3ea5 GDPGTP-binding nuclear protein Ran / 0.690
1cxz GSPTransforming protein RhoA / 0.689
4tld AGSCircadian clock protein kinase KaiC 2.7.11.1 0.689
1xmv ADPProtein RecA / 0.687
4ko8 AGSTransitional endoplasmic reticulum ATPase 3.6.4.6 0.687
4xoi GTPTransforming protein RhoA / 0.687
1ow3 GDPTransforming protein RhoA / 0.686
1wbb ADPDNA mismatch repair protein MutS / 0.686
2cls GTPRho-related GTP-binding protein Rho6 / 0.686
3e5h GNPRas-related protein Rab-28 / 0.686
1bof GDPGuanine nucleotide-binding protein G(i) subunit alpha-1 / 0.685
3cx8 GSPGuanine nucleotide-binding protein subunit alpha-13 / 0.682
3hu2 AGSTransitional endoplasmic reticulum ATPase 3.6.4.6 0.682
3hu1 AGSTransitional endoplasmic reticulum ATPase 3.6.4.6 0.679
1mh1 GNPRas-related C3 botulinum toxin substrate 1 / 0.677
1rrg GDPADP-ribosylation factor 1 / 0.676
2jj2 ANPATP synthase subunit beta, mitochondrial 3.6.3.14 0.676
2vf7 ADPUvrABC system protein A / 0.675
4cvl ACPUDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase / 0.674
3aq0 ISYSolanesyl diphosphate synthase 3, chloroplastic/mitochondrial 2.5.1.85 0.673
1e96 GTPRas-related C3 botulinum toxin substrate 1 / 0.672
2oap ANPType II secretion system protein (GspE-2) / 0.672
2y65 ADPKinesin heavy chain / 0.672
1gia GSPGuanine nucleotide-binding protein G(i) subunit alpha-1 / 0.671
2ffq GSPRas-related protein Rab-6B / 0.671
2j0v GDPRac-like GTP-binding protein ARAC7 / 0.671
3pcr GTPADP-ribosylation factor 6 / 0.671
4kvg GTPRas-related protein Rap-1A / 0.671
1os1 ATPPhosphoenolpyruvate carboxykinase (ATP) / 0.670
3lbi GNPGTPase HRas / 0.669
2gil GTPRas-related protein Rab-6A / 0.668
4uxj TTPThymidine kinase / 0.668
1zbd GTPRas-related protein Rab-3A / 0.667
3th5 GNPRas-related C3 botulinum toxin substrate 1 / 0.667
1mmg AGSMyosin-2 heavy chain / 0.666
2fg5 GNPRas-related protein Rab-31 / 0.665
3c16 GSPGuanine nucleotide-binding protein G(s) subunit alpha isoforms short / 0.665
2gvd GSPGuanine nucleotide-binding protein G(s) subunit alpha isoforms short / 0.664
4oi4 ATPmRNA cleavage and polyadenylation factor CLP1 / 0.664
1rj9 GCPSignal recognition particle receptor FtsY / 0.663
3sbd GNPRas-related C3 botulinum toxin substrate 1 / 0.663
4x8l AP5Adenylate kinase / 0.663
3i5x ANPATP-dependent RNA helicase MSS116, mitochondrial 3.6.4.13 0.662
4a1z ADPKinesin-like protein KIF11 / 0.662
1s3s ADPTransitional endoplasmic reticulum ATPase 3.6.4.6 0.660
4pl0 ANPMicrocin-J25 export ATP-binding/permease protein McjD / 0.660
2c9c ATPPsp operon transcriptional activator / 0.658
1e79 ATPATP synthase subunit alpha, mitochondrial / 0.657
1e79 ATPATP synthase subunit beta, mitochondrial 3.6.3.14 0.657
3hqd ANPKinesin-like protein KIF11 / 0.657
4asu ADPATP synthase subunit alpha, mitochondrial / 0.657
4zir ANPEnergy-coupling factor transporter ATP-binding protein EcfA2 3.6.3 0.657
4zir ANPEnergy-coupling factor transporter ATP-binding protein EcfA1 / 0.657
5c46 GSPRas-related protein Rab-11A / 0.657
5dha GNPGTP-binding nuclear protein Ran / 0.656
4gp6 ADPMetallophosphoesterase / 0.655
4mkf AP5Adenylate kinase / 0.655
3nbz GTPGTP-binding nuclear protein Ran / 0.654
3r9x GNPGTPase Era / 0.654
5di3 GNPADP-ribosylation factor-like protein 3 / 0.654
4dso GSPGTPase KRas / 0.653
1p3j AP5Adenylate kinase / 0.652
1s1c GNPTransforming protein RhoA / 0.652
3wyf GTPGTP-binding nuclear protein / 0.652
2fah GDPPhosphoenolpyruvate carboxykinase [GTP], mitochondrial 4.1.1.32 0.651
5jlj GNPGTP-binding nuclear protein Ran / 0.651
3dt2 GTPPhosphoenolpyruvate carboxykinase, cytosolic [GTP] 4.1.1.32 0.650
3kz1 GSPTransforming protein RhoA / 0.650