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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
4cid ANP EH domain-containing protein 2

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
4cid ANPEH domain-containing protein 2 / 1.061
4dsn GCPGTPase KRas / 0.862
3a58 GNPGTP-binding protein RHO1 / 0.813
1z2c GNPRho-related GTP-binding protein RhoC / 0.810
3sbe GNPRas-related C3 botulinum toxin substrate 1 / 0.808
3pit GNPRas-related protein M-Ras / 0.790
2ffq GSPRas-related protein Rab-6B / 0.784
1yzq GNPRas-related protein Rab-6A / 0.782
4g0n GNPGTPase HRas / 0.779
3mjh GTPRas-related protein Rab-5A / 0.776
4k81 GTPGTPase HRas / 0.776
1kmq GNPTransforming protein RhoA / 0.772
4mit GTPRho-related protein racC / 0.772
4c2u ANPDNA helicase / 0.767
1okk GCPSignal recognition particle protein / 0.765
1okk GCPSignal recognition particle receptor FtsY / 0.765
1yu9 GNPRas-related protein Rab-4A / 0.765
1mh1 GNPRas-related C3 botulinum toxin substrate 1 / 0.764
2jj2 ANPATP synthase subunit beta, mitochondrial 3.6.3.14 0.764
3oes GNPGTPase RhebL1 / 0.763
2qme GCPRas-related C3 botulinum toxin substrate 3 / 0.761
3q9l ATPSeptum site-determining protein MinD / 0.761
3th5 GNPRas-related C3 botulinum toxin substrate 1 / 0.761
4xvq GNPGTPase HRas / 0.761
1cxz GSPTransforming protein RhoA / 0.760
1vg8 GNPRas-related protein Rab-7a / 0.760
1xts GTPGTP-binding protein Rheb / 0.759
4xvu ATPATPase GET3 / 0.759
3rab GNPRas-related protein Rab-3A / 0.758
2fg5 GNPRas-related protein Rab-31 / 0.757
3ddc GNPGTPase HRas / 0.754
5l3r GCPCell division protein FtsY homolog, chloroplastic / 0.754
3kko GNPRas-related protein M-Ras / 0.752
2bku GTPGTP-binding nuclear protein Ran / 0.751
1a2b GSPTransforming protein RhoA / 0.750
3b1x GNPFerrous iron transport protein B / 0.750
1n6l GTPRas-related protein Rab-5A / 0.749
2rgc GNPGTPase HRas / 0.748
4dlz GNPGTPase HRas / 0.748
4dlx GNPGTPase HRas / 0.747
4lhw GNPRas-related protein Rab-8A / 0.746
2jiz ANPATP synthase subunit beta, mitochondrial 3.6.3.14 0.745
3cx8 GSPGuanine nucleotide-binding protein subunit alpha-13 / 0.745
4dlt GNPGTPase HRas / 0.745
4dlv GNPGTPase HRas / 0.745
4dvg GSPRho family GTPase / 0.745
3i3s GNPGTPase HRas / 0.744
3k8y GNPGTPase HRas / 0.744
3lbi GNPGTPase HRas / 0.744
1tu3 GNPRas-related protein Rab-5A / 0.743
2xtz GSPGuanine nucleotide-binding protein alpha-1 subunit / 0.743
3v4f GNPGTPase HRas / 0.743
4dlw GNPGTPase HRas / 0.743
2j7p GNPSignal recognition particle protein / 0.742
2j7p GNPSignal recognition particle receptor FtsY / 0.742
1zc4 GNPRas-related protein Ral-A / 0.741
3oiv GNPGTPase HRas / 0.741
3lbn GNPGTPase HRas / 0.740
4l9w GNPGTPase HRas / 0.740
4qxa GTPRas-related protein Rab-9A / 0.740
1cul GSPGuanine nucleotide-binding protein G(s) subunit alpha isoforms short / 0.739
1e96 GTPRas-related C3 botulinum toxin substrate 1 / 0.739
4be7 ATPType I restriction enzyme EcoR124II R protein 3.1.21.3 0.739
4idn GNPAtlastin-1 3.6.5 0.739
4cym GCPRas-related protein Rab-32 / 0.738
1gia GSPGuanine nucleotide-binding protein G(i) subunit alpha-1 / 0.737
3vhx GTPADP-ribosylation factor 6 / 0.737
3sbd GNPRas-related C3 botulinum toxin substrate 1 / 0.736
2c5l GTPGTPase HRas / 0.734
2ic5 GNPRas-related C3 botulinum toxin substrate 3 / 0.733
1g17 GNPRas-related protein SEC4 / 0.732
4js0 GNPCell division control protein 42 homolog / 0.732
1xtr GNPGTP-binding protein Rheb / 0.731
3k9l GNPGTPase HRas / 0.731
2rge GNPGTPase HRas / 0.730
5dif GNPGTP-binding nuclear protein Ran / 0.730
1d5c GDPGTPase (Rab6) / 0.729
3kud GDPGTPase HRas / 0.729
3lbh GNPGTPase HRas / 0.729
2w2x GSPRas-related C3 botulinum toxin substrate 2 / 0.727
4o25 GTPGTP-binding protein Rheb / 0.727
5di3 GNPADP-ribosylation factor-like protein 3 / 0.727
2hf8 GSPProbable hydrogenase nickel incorporation protein HypB / 0.726
3kuc GDPRas-related protein Rap-1A / 0.726
4gzl GNPRas-related C3 botulinum toxin substrate 1 / 0.726
4dls GNPGTPase HRas / 0.725
2bme GNPRas-related protein Rab-4A / 0.723
3w3z GTPGTP-binding nuclear protein Ran / 0.723
5l3s GNPSignal recognition particle receptor FtsY / 0.722
2bc9 GNPGuanylate-binding protein 1 / 0.721
2j5x GSPADP-ribosylation factor 6 / 0.720
4uj3 GNPRas-related protein Rab-11A / 0.719
3e5h GNPRas-related protein Rab-28 / 0.718
1wdt GTPElongation factor G (EF-G-2) / 0.717
1gqy ACPUDP-N-acetylmuramate--L-alanine ligase 6.3.2.8 0.716
2ov2 GCPRas-related C3 botulinum toxin substrate 3 / 0.714
3oiw GNPGTPase HRas / 0.714
3rs0 GNPGTPase HRas / 0.714
3rs4 GNPGTPase HRas / 0.713
3rs5 GNPGTPase HRas / 0.713
3rs7 GNPGTPase HRas / 0.713
3wyf GTPGTP-binding nuclear protein / 0.713
4hdo GNPRas-related protein Rap-1b / 0.713
5b2z GNPGTPase HRas / 0.713
1p3d ANPUDP-N-acetylmuramate--L-alanine ligase 6.3.2.8 0.712
3l8y GNPGTPase HRas / 0.712
3rsl GNPGTPase HRas / 0.712
2rgb GNPGTPase HRas / 0.711
1wa5 GTPGTP-binding nuclear protein Ran / 0.710
2j0s ANPEukaryotic initiation factor 4A-III 3.6.4.13 0.710
2jlr ANPGenome polyprotein 3.4.21.91 0.710
2v7q ATPATP synthase subunit alpha, mitochondrial / 0.710
2v7q ATPATP synthase subunit beta, mitochondrial 3.6.3.14 0.710
2w2v GTPRas-related C3 botulinum toxin substrate 2 / 0.710
3law GNPRas-related protein Rab-7a / 0.710
1fmw ATPMyosin-2 heavy chain / 0.707
3adc ANPL-seryl-tRNA(Sec) kinase 2.7.1.164 0.707
4pao GSPGuanine nucleotide-binding protein G(i) subunit alpha-1 / 0.707
1s1c GNPTransforming protein RhoA / 0.706
1w5t ANPORC1-type DNA replication protein 2 / 0.706
3zia ATPATP synthase subunit alpha, mitochondrial / 0.706
4rkf GNPRas-related protein Rab-3 / 0.706
1uad GNPRas-related protein Ral-A / 0.705
5dha GNPGTP-binding nuclear protein Ran / 0.705
1cs4 GSPGuanine nucleotide-binding protein G(s) subunit alpha isoforms short / 0.704
3cx6 GDPGuanine nucleotide-binding protein subunit alpha-13 / 0.704
1h8h ATPATP synthase subunit alpha, mitochondrial / 0.703
1h8h ATPATP synthase subunit beta, mitochondrial 3.6.3.14 0.703
2fju GSPRas-related C3 botulinum toxin substrate 1 / 0.703
3bbp GTPRas-related protein Rab-6A / 0.703
3r9x GNPGTPase Era / 0.702
3a4l ANPL-seryl-tRNA(Sec) kinase 2.7.1.164 0.701
3fkq ATPNtrC-like two-domain protein / 0.701
1gwn GTPRho-related GTP-binding protein RhoE / 0.700
2qtv GNPSmall COPII coat GTPase SAR1 3.6.5 0.700
1v8k ANPKinesin-like protein KIF2C / 0.696
2qf2 GDPPhosphoenolpyruvate carboxykinase, cytosolic [GTP] 4.1.1.32 0.693
3pcr GTPADP-ribosylation factor 6 / 0.693
4dso GSPGTPase KRas / 0.693
4m0l GDPTranslation initiation factor 2 subunit gamma / 0.693
4q02 GDPGTPase KRas / 0.693
2gil GTPRas-related protein Rab-6A / 0.692
4v02 ATPSite-determining protein / 0.691
1wbb ADPDNA mismatch repair protein MutS / 0.690
3fmo ADPATP-dependent RNA helicase DDX19B 3.6.4.13 0.689
3onw GDPGuanine nucleotide-binding protein G(i) subunit alpha-1 / 0.689
3zfd ANPChromosome-associated kinesin KIF4 / 0.689
3zia ADPATP synthase subunit beta, mitochondrial 3.6.3.14 0.689
1m7b GTPRho-related GTP-binding protein RhoE / 0.688
1azt GSPGuanine nucleotide-binding protein G(s) subunit alpha isoforms short / 0.687
1zc3 GNPRas-related protein Ral-A / 0.687
4nyi GNPGTPase HRas / 0.686
1q3h ANPCystic fibrosis transmembrane conductance regulator / 0.685
2bbw GP5Adenylate kinase 4, mitochondrial / 0.684
2jj1 ANPATP synthase subunit alpha, mitochondrial / 0.684
4idp GNPAtlastin-1 3.6.5 0.684
1esn ANPPantothenate kinase 2.7.1.33 0.683
4ohv ANPProtein clpf-1 / 0.683
5k5z ANPUncharacterized protein / 0.682
2xtn GTPGTPase IMAP family member 2 / 0.681
4y0v GDPADP-ribosylation factor 1, putative / 0.681
4ylg GDPADP-ribosylation factor 1, putative / 0.681
3a6p GTPGTP-binding nuclear protein Ran / 0.680
1k5d GNPGTP-binding nuclear protein Ran / 0.679
1sq5 ADPPantothenate kinase 2.7.1.33 0.679
2qen ADPWalker-Type ATPase / 0.679
3jvv ACPTwitching mobility protein / 0.679
1ank ANPAdenylate kinase / 0.678
1f5n GNPGuanylate-binding protein 1 / 0.677
4ol0 GTPGTP-binding nuclear protein Ran / 0.677
2p2l GDPRas-related C3 botulinum toxin substrate 1 / 0.675
4g01 GDPRas-related protein RABF2b / 0.675
3bc1 GNPRas-related protein Rab-27A / 0.674
4lv6 GDPGTPase KRas / 0.674
4x8l AP5Adenylate kinase / 0.674
3eg5 GNPCell division control protein 42 homolog / 0.673
3t1t GDPProbable gliding protein mglA / 0.673
4xoi GTPTransforming protein RhoA / 0.673
1b7t ADPMyosin heavy chain, striated muscle / 0.672
2jj2 ADPATP synthase subunit alpha, mitochondrial / 0.672
2jj2 ADPATP synthase subunit beta, mitochondrial 3.6.3.14 0.672
3oiu GNPGTPase HRas / 0.672
4kln AGSTransitional endoplasmic reticulum ATPase 3.6.4.6 0.671
2fe4 GDPRas-related protein Rab-6B / 0.670
3oeh ANPATP synthase subunit alpha, mitochondrial / 0.670
4tq9 GDPGTPase KRas / 0.670
1bmf ANPATP synthase subunit alpha, mitochondrial / 0.669
1bmf ANPATP synthase subunit beta, mitochondrial 3.6.3.14 0.669
4pfp ADPUnconventional myosin-VI / 0.669
1zcb GDPGuanine nucleotide-binding protein subunit alpha-13 / 0.668
4pjk ADPMyosin-2 heavy chain / 0.668
1rj9 GCPSignal recognition particle receptor FtsY / 0.667
4ohx ADPProtein clpf-1 / 0.667
4jl5 ADPAdenylate kinase / 0.665
4xsg GSPTransforming protein RhoA / 0.665
1m2o GNPSmall COPII coat GTPase SAR1 3.6.5 0.664
1svm ATPLarge T antigen 3.6.4 0.664
2fgj ATPAlpha-hemolysin translocation ATP-binding protein HlyB / 0.664
2xto GDPGTPase IMAP family member 2 / 0.664
4bec ATPType I restriction enzyme EcoR124II R protein 3.1.21.3 0.664
1w5t ADPORC1-type DNA replication protein 2 / 0.662
1gp2 GDPGuanine nucleotide-binding protein G(i) subunit alpha-1 / 0.661
4xjx ATPType I restriction enzyme EcoR124II R protein 3.1.21.3 0.661
4pk4 ADPUnconventional myosin-VI / 0.660
1z0a GDPRas-related protein Rab-2A / 0.659
1h8h ADPATP synthase subunit alpha, mitochondrial / 0.658
1h8h ADPATP synthase subunit beta, mitochondrial 3.6.3.14 0.658
3c14 GSPGuanine nucleotide-binding protein G(s) subunit alpha isoforms short / 0.658
3cob ADPKinesin heavy chain-like protein / 0.658
3x1z GNPRas-related protein Rap-1b / 0.658
3hu3 AGSTransitional endoplasmic reticulum ATPase 3.6.4.6 0.657
2g0n GDPRas-related C3 botulinum toxin substrate 3 / 0.656
2gvd GSPGuanine nucleotide-binding protein G(s) subunit alpha isoforms short / 0.656
3kz1 GSPTransforming protein RhoA / 0.656
4db1 ANPMyosin-7 / 0.655
4ko8 AGSTransitional endoplasmic reticulum ATPase 3.6.4.6 0.655
4kvg GTPRas-related protein Rap-1A / 0.655
2j0v GDPRac-like GTP-binding protein ARAC7 / 0.654
3rye UNRFarnesyl pyrophosphate synthase 2.5.1.10 0.654
1jx2 ADPMyosin-2 heavy chain / 0.653
3c16 GSPGuanine nucleotide-binding protein G(s) subunit alpha isoforms short / 0.653
1mmg AGSMyosin-2 heavy chain / 0.652
3ftq GNPSeptin-2 / 0.652
1gil GSPGuanine nucleotide-binding protein G(i) subunit alpha-1 / 0.650