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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
4fj5 DTP DNA-directed DNA polymerase

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
4fj5 DTPDNA-directed DNA polymerase / 1.179
4fjh DGTDNA-directed DNA polymerase / 1.153
4m42 ATPDNA-directed DNA polymerase / 1.143
3ne6 DCPDNA-directed DNA polymerase / 1.126
4fjm DCPDNA-directed DNA polymerase / 1.113
4fjj TTPDNA-directed DNA polymerase / 1.110
4dtj TTPDNA-directed DNA polymerase / 1.102
4fk4 DGTDNA-directed DNA polymerase / 1.101
4dtp DGTDNA-directed DNA polymerase / 1.094
4dtx TTPDNA-directed DNA polymerase / 1.086
4fjl DGTDNA-directed DNA polymerase / 1.086
3sup DCPDNA-directed DNA polymerase / 1.075
4m3t ATPDNA-directed DNA polymerase / 1.066
4m3x ATPDNA-directed DNA polymerase / 1.064
3lzj CTPDNA-directed DNA polymerase / 1.056
4khy TTPDNA-directed DNA polymerase / 1.036
4dto DCPDNA-directed DNA polymerase / 0.927
4ptf DCPDNA polymerase epsilon catalytic subunit A 2.7.7.7 0.883
4dtm DCPDNA-directed DNA polymerase / 0.870
3g6x DGTDNA polymerase iota 2.7.7.7 0.858
4dfk 0L5DNA polymerase I, thermostable 2.7.7.7 0.834
4df4 0L3DNA polymerase I, thermostable 2.7.7.7 0.826
4df8 0L4DNA polymerase I, thermostable 2.7.7.7 0.795
3q23 G2PVirion DNA-directed RNA polymerase / 0.787
4rwn APC2'-5'-oligoadenylate synthase 1 2.7.7.84 0.761
3au2 DGTDNA polymerase beta family (X family) / 0.757
1qsy DDSDNA polymerase I, thermostable 2.7.7.7 0.754
1qtm TTPDNA polymerase I, thermostable 2.7.7.7 0.737
2q66 ATPPoly(A) polymerase 2.7.7.19 0.736
2b56 UTPRNA editing complex protein MP57 / 0.727
3wbz ATPtRNA(His) guanylyltransferase {ECO:0000256|PIRNR:PIRNR028980} / 0.724
4k97 ATPCyclic GMP-AMP synthase / 0.723
4xj4 3ATCyclic GMP-AMP synthase / 0.719
2b51 UTPRNA editing complex protein MP57 / 0.715
1r89 CTPCCA-adding enzyme 2.7.7.72 0.710
5a2w AGSMitochondrial poly(A) polymerase / 0.704
4xj3 GTPCyclic GMP-AMP synthase / 0.701
1cjv DADAdenylate cyclase type 2 / 0.699
1cjv DADAdenylate cyclase type 5 / 0.699
1r8b ATPCCA-adding enzyme 2.7.7.72 0.698
1r8c UTPCCA-adding enzyme 2.7.7.72 0.696
4u03 GTPCyclic GMP-AMP synthase / 0.696
3hiy UTPUncharacterized protein / 0.689
5c03 AGSNon-receptor tyrosine-protein kinase TYK2 2.7.10.2 0.685
3vpb ADPGlutamate--LysW ligase ArgX 6.3.2 0.675
4ko8 AGSTransitional endoplasmic reticulum ATPase 3.6.4.6 0.667
3vx4 ATPPutative ABC transporter, ATP-binding protein ComA / 0.664
1lwx AZDNucleoside diphosphate kinase, cytosolic 2.7.4.6 0.661
2q0f UTPPoly(A) polymerase, putative / 0.660
3t3f N5PDNA polymerase I, thermostable 2.7.7.7 0.660
2jlr ANPGenome polyprotein 3.4.21.91 0.659
4n57 ADPAPH(2'')-Id / 0.659
3otb DGTProbable tRNA(His) guanylyltransferase 2.7.7.79 0.658
4kgk GTPUncharacterized protein / 0.656
2jiz ADPATP synthase subunit beta, mitochondrial 3.6.3.14 0.655
1gjv AGS[3-methyl-2-oxobutanoate dehydrogenase [lipoamide]] kinase, mitochondrial 2.7.11.4 0.654
2jib ADPOxalyl-CoA decarboxylase 4.1.1.8 0.653
2zrx FMNIsopentenyl-diphosphate delta-isomerase / 0.653
4jsy GTPMetallophosphoesterase / 0.652
4tnq TTPDeoxynucleoside triphosphate triphosphohydrolase SAMHD1 3.1.5 0.652
1upa TPPN(2)-(2-carboxyethyl)arginine synthase / 0.651
3dt4 GTPPhosphoenolpyruvate carboxykinase, cytosolic [GTP] 4.1.1.32 0.651
1a2b GSPTransforming protein RhoA / 0.650
3m0e ATPTranscriptional regulator (NtrC family) / 0.650