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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
1e32 ADP Transitional endoplasmic reticulum ATPase 3.6.4.6

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
1e32 ADPTransitional endoplasmic reticulum ATPase 3.6.4.6 0.977
1s3s ADPTransitional endoplasmic reticulum ATPase 3.6.4.6 0.865
2ce7 ADPATP-dependent zinc metalloprotease FtsH / 0.762
1ht2 ADPATP-dependent protease ATPase subunit HslU / 0.745
3k1j ADPATP-dependent protease Lon / 0.737
4ncl GDPEukaryotic translation initiation factor 5B / 0.737
1ny5 ADPTranscriptional regulator (NtrC family) / 0.733
4d81 ADPAAA ATPase, central domain protein / 0.728
1njf ADPDNA polymerase III subunit tau 2.7.7.7 0.727
3nbx ADPATPase RavA 3.6.3 0.720
3pfi ADPHolliday junction ATP-dependent DNA helicase RuvB / 0.719
4i1v ADPDephospho-CoA kinase / 0.719
1got GDPGuanine nucleotide-binding protein G(t) subunit alpha-1 / 0.717
3fmo ADPATP-dependent RNA helicase DDX19B 3.6.4.13 0.716
3cx6 GDPGuanine nucleotide-binding protein subunit alpha-13 / 0.712
3hu3 AGSTransitional endoplasmic reticulum ATPase 3.6.4.6 0.711
2osb AP5Adenylate kinase / 0.709
5fl3 ADPPili retraction protein PilT / 0.709
1g41 ADPATP-dependent protease ATPase subunit HslU / 0.708
4ko8 AGSTransitional endoplasmic reticulum ATPase 3.6.4.6 0.708
3mle ADPATP-dependent dethiobiotin synthetase BioD 6.3.3.3 0.706
4idn GNPAtlastin-1 3.6.5 0.706
2i1v ADP6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase 3 2.7.1.105 0.704
4l16 ADPFidgetin-like protein 1 3.6.4 0.704
2v7q ATPATP synthase subunit alpha, mitochondrial / 0.703
2v7q ATPATP synthase subunit beta, mitochondrial 3.6.3.14 0.703
3cf0 ADPTransitional endoplasmic reticulum ATPase 3.6.4.6 0.702
5ftc ADPTPR domain protein / 0.702
1gp2 GDPGuanine nucleotide-binding protein G(i) subunit alpha-1 / 0.701
4ma4 ADP6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase 3 2.7.1.105 0.701
1e1q ADPATP synthase subunit beta, mitochondrial 3.6.3.14 0.700
2axn ADP6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase 3 / 0.697
3qpv ADP6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase 3 2.7.1.105 0.696
2fna ADPUncharacterized protein / 0.694
1gwn GTPRho-related GTP-binding protein RhoE / 0.692
3dt2 GTPPhosphoenolpyruvate carboxykinase, cytosolic [GTP] 4.1.1.32 0.692
3kuc GDPRas-related protein Rap-1A / 0.691
4o25 GTPGTP-binding protein Rheb / 0.691
1zcb GDPGuanine nucleotide-binding protein subunit alpha-13 / 0.690
1z2a GDPRas-related protein Rab-23 / 0.689
4o2r GDPGTP-binding protein Rheb / 0.689
1m7b GTPRho-related GTP-binding protein RhoE / 0.688
2qaj AP5Adenylate kinase / 0.687
4dso GSPGTPase KRas / 0.687
1a2b GSPTransforming protein RhoA / 0.685
4gzm GSPRas-related C3 botulinum toxin substrate 1 / 0.685
4kod ADPTransitional endoplasmic reticulum ATPase 3.6.4.6 0.685
4m0l GDPTranslation initiation factor 2 subunit gamma / 0.685
2l0x GDPGTP-binding protein Rheb / 0.684
3d8b ADPFidgetin-like protein 1 3.6.4 0.684
3tif ADPUncharacterized ABC transporter ATP-binding protein MJ0796 / 0.684
4wou GDPPhosphoenolpyruvate carboxykinase [GTP] / 0.684
2ck3 ANPATP synthase subunit alpha, mitochondrial / 0.683
2ck3 ANPATP synthase subunit beta, mitochondrial 3.6.3.14 0.683
1e4y AP5Adenylate kinase / 0.681
2zro ADPProtein RecA / 0.681
4gp6 ADPMetallophosphoesterase / 0.681
2zet GTPRas-related protein Rab-27B / 0.679
4g0n GNPGTPase HRas / 0.679
1rrg GDPADP-ribosylation factor 1 / 0.678
2cl6 CAGGTPase HRas / 0.678
2gcp GSPRho-related GTP-binding protein RhoC / 0.678
2olr ATPPhosphoenolpyruvate carboxykinase (ATP) / 0.678
1ayl ATPPhosphoenolpyruvate carboxykinase (ATP) / 0.677
4itr GDPCell division control protein 42 homolog / 0.677
1bif AGS6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase 4 2.7.1.105 0.676
1d5c GDPGTPase (Rab6) / 0.676
1xkv ATPPhosphoenolpyruvate carboxykinase (ATP) / 0.676
3onw GDPGuanine nucleotide-binding protein G(i) subunit alpha-1 / 0.676
3zl8 ADPUDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase / 0.676
5d3q GDPDynamin-1 3.6.5.5 0.676
2j0s ANPEukaryotic initiation factor 4A-III 3.6.4.13 0.675
2pg2 ADPKinesin-like protein KIF11 / 0.675
1e96 GTPRas-related C3 botulinum toxin substrate 1 / 0.674
2x2r ADPKinesin-like protein KIF11 / 0.674
1z0d GDPRas-related protein Rab-5C / 0.673
2bku GTPGTP-binding nuclear protein Ran / 0.673
2fah GDPPhosphoenolpyruvate carboxykinase [GTP], mitochondrial 4.1.1.32 0.673
2xtz GSPGuanine nucleotide-binding protein alpha-1 subunit / 0.673
3oeh ANPATP synthase subunit alpha, mitochondrial / 0.673
5c46 GSPRas-related protein Rab-11A / 0.673
1sxj AGSReplication factor C subunit 1 / 0.672
1ytm ATPPhosphoenolpyruvate carboxykinase (ATP) / 0.672
1zd9 GDPADP-ribosylation factor-like protein 8A / 0.672
3hu2 AGSTransitional endoplasmic reticulum ATPase 3.6.4.6 0.672
4dvg GSPRho family GTPase / 0.672
1w5s ADPORC1-type DNA replication protein 2 / 0.671
2j5x GSPADP-ribosylation factor 6 / 0.671
1t91 GTPRas-related protein Rab-7a / 0.670
1z6t ADPApoptotic protease-activating factor 1 / 0.670
1cs4 GSPGuanine nucleotide-binding protein G(s) subunit alpha isoforms short / 0.669
2c9o ADPRuvB-like 1 3.6.4.12 0.668
4dzz ADPPlasmid partitioning protein ParF / 0.668
4pan GDPGuanine nucleotide-binding protein G(i) subunit alpha-1 / 0.668
1xnj ADPBifunctional 3'-phosphoadenosine 5'-phosphosulfate synthase 1 2.7.1.25 0.667
2ffq GSPRas-related protein Rab-6B / 0.667
4pjj ADPUnconventional myosin-VI / 0.667
1njf AGSDNA polymerase III subunit tau 2.7.7.7 0.665
2vf7 ADPUvrABC system protein A / 0.665
3bb3 GDPTranslocase of chloroplast 33, chloroplastic 3.6.5 0.665
4mkh AP5Adenylate kinase / 0.665
4qbg AP5Adenylate kinase / 0.665
1cxz GSPTransforming protein RhoA / 0.664
4oi2 ADPProtein clpf-1 / 0.664
4pao GSPGuanine nucleotide-binding protein G(i) subunit alpha-1 / 0.664
3ref GDPRho family GTPase / 0.662
4d0l GSPRas-related protein Rab-11A / 0.662
4luc GDPGTPase KRas / 0.662
1fmw ATPMyosin-2 heavy chain / 0.660
2gil GTPRas-related protein Rab-6A / 0.660
3qbv GDPCell division control protein 42 homolog / 0.660
4k81 GTPGTPase HRas / 0.660
2gvd GSPGuanine nucleotide-binding protein G(s) subunit alpha isoforms short / 0.659
3ea5 GDPGTP-binding nuclear protein Ran / 0.659
3tlx ADPAdenylate kinase 2 / 0.659
3vx4 ATPPutative ABC transporter, ATP-binding protein ComA / 0.659
4mkf AP5Adenylate kinase / 0.659
4ol0 GTPGTP-binding nuclear protein Ran / 0.659
1zbd GTPRas-related protein Rab-3A / 0.658
1m2o GNPSmall COPII coat GTPase SAR1 3.6.5 0.657
5irn ADPNucleotide binding oligomerization domain containing 2 / 0.657
1nly AGSCag alpha / 0.656
1xts GTPGTP-binding protein Rheb / 0.656
2zr9 DTPProtein RecA / 0.656
3t1t GDPProbable gliding protein mglA / 0.656
1svl ADPLarge T antigen 3.6.4 0.655
3wyf GTPGTP-binding nuclear protein / 0.655
1cul GSPGuanine nucleotide-binding protein G(s) subunit alpha isoforms short / 0.654
1tu3 GNPRas-related protein Rab-5A / 0.654
1u0h GSPGuanine nucleotide-binding protein G(s) subunit alpha isoforms short / 0.654
1xtr GNPGTP-binding protein Rheb / 0.654
2qen ADPWalker-Type ATPase / 0.654
1p9w ANPType II secretion system protein E / 0.653
2jj2 ANPATP synthase subunit beta, mitochondrial 3.6.3.14 0.653
2py7 ATPPhosphoenolpyruvate carboxykinase (ATP) / 0.653
1z2c GNPRho-related GTP-binding protein RhoC / 0.652
3ums GDPGuanine nucleotide-binding protein G(i) subunit alpha-1 / 0.652
4x8l AP5Adenylate kinase / 0.652
4y0v GDPADP-ribosylation factor 1, putative / 0.652
4ylg GDPADP-ribosylation factor 1, putative / 0.652
1w5t ANPORC1-type DNA replication protein 2 / 0.651
2v7q ADPATP synthase subunit beta, mitochondrial 3.6.3.14 0.651
2xto GDPGTPase IMAP family member 2 / 0.650
2zs9 ADPPantothenate kinase 2.7.1.33 0.650
3tqc ADPPantothenate kinase / 0.650
4wpu GDPPhosphoenolpyruvate carboxykinase [GTP] / 0.650
4xoi GTPTransforming protein RhoA / 0.650
4xvr GNPGTPase HRas / 0.650