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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
5c1o ANP D-alanine--D-alanine ligase

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
5c1o ANPD-alanine--D-alanine ligase / 1.152
5c1p ADPD-alanine--D-alanine ligase / 0.894
2ioa ADPBifunctional glutathionylspermidine synthetase/amidase / 0.829
2io8 ADPBifunctional glutathionylspermidine synthetase/amidase / 0.817
5bpf ADPD-alanine--D-alanine ligase / 0.775
2io9 ADPBifunctional glutathionylspermidine synthetase/amidase / 0.772
4c5b ADPD-alanine--D-alanine ligase B 6.3.2.4 0.762
3vpb ADPGlutamate--LysW ligase ArgX 6.3.2 0.760
3wnz ADPAlanine--anticapsin ligase / 0.756
4q4c ADPInositol hexakisphosphate and diphosphoinositol-pentakisphosphate kinase 2 / 0.756
4nzo ANPInositol hexakisphosphate and diphosphoinositol-pentakisphosphate kinase 2 / 0.752
3t9f ADPInositol hexakisphosphate and diphosphoinositol-pentakisphosphate kinase 2 / 0.749
3wo0 ADPAlanine--anticapsin ligase / 0.745
3tw6 ADPPyruvate carboxylase / 0.725
4ffm ADPUncharacterized protein / 0.725
4ffl ADPUncharacterized protein / 0.721
3q1k ADPD-alanine--D-alanine ligase A 6.3.2.4 0.718
3t9e ADPInositol hexakisphosphate and diphosphoinositol-pentakisphosphate kinase 2 / 0.712
2p0a ANPSynapsin-3 / 0.710
4fu0 ADPD-alanine--D-alanine ligase / 0.710
2vqd AP2Biotin carboxylase 6.3.4.14 0.709
2zdg ADPD-alanine--D-alanine ligase / 0.703
3t9d ANPInositol hexakisphosphate and diphosphoinositol-pentakisphosphate kinase 2 / 0.703
4ffr ATPUncharacterized protein / 0.700
1aux AGSSynapsin-1 / 0.699
4o1p ANPRibonuclease L / 0.693
3hyo ADPPyridoxal kinase / 0.691
1m0w ANPGlutathione synthetase 6.3.2.3 0.685
1mqb ANPEphrin type-A receptor 2 2.7.10.1 0.685
3lmi ATPMyosin heavy chain kinase A 2.7.11.7 0.685
1px2 ATPSynapsin-1 / 0.684
4i3z ADPCyclin-dependent kinase 2 2.7.11.22 0.681
3i12 ADPD-alanine--D-alanine ligase A 6.3.2.4 0.678
4xw4 ANPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.678
3eps ATPIsocitrate dehydrogenase kinase/phosphatase / 0.674
1dv2 ATPBiotin carboxylase 6.3.4.14 0.673
3hpr AP5Adenylate kinase / 0.670
1ia9 ANPTransient receptor potential cation channel subfamily M member 7 2.7.11.1 0.668
3akk ADPSerine/threonine-protein kinase CtkA 2.7.11.1 0.665
2r86 ATP5-formaminoimidazole-4-carboxamide-1-(beta)-D-ribofuranosyl 5'-monophosphate synthetase / 0.664
4eoo ATPCyclin-dependent kinase 2 2.7.11.22 0.664
1n07 ADPRiboflavin kinase 2.7.1.26 0.662
3tpt ADPSerine/threonine-protein kinase toxin HipA / 0.661
4c5c ATPD-alanine--D-alanine ligase B 6.3.2.4 0.660
4mam A12N5-carboxyaminoimidazole ribonucleotide synthase / 0.660
5c3b URMHisto-blood group ABO system transferase / 0.660
4zs4 ATPMyosin heavy chain kinase A 2.7.11.7 0.659
2ha8 SAHProbable methyltransferase TARBP1 / 0.657
2r7n ADP5-formaminoimidazole-4-carboxamide-1-(beta)-D-ribofuranosyl 5'-monophosphate synthetase / 0.657
3dnt ATPSerine/threonine-protein kinase toxin HipA / 0.657
3t54 ATPInositol hexakisphosphate and diphosphoinositol-pentakisphosphate kinase 2 / 0.657
3att ATPPutative aminoglycoside phosphotransferase 2.7.1 0.656
3cvu FADRE11660p / 0.656
4iac ACPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.656
1w2c ANPInositol-trisphosphate 3-kinase A 2.7.1.127 0.655
2g2f AGSTyrosine-protein kinase ABL1 2.7.10.2 0.655
2wq7 FADRE11660p / 0.655
1w2d ADPInositol-trisphosphate 3-kinase A 2.7.1.127 0.654
2w5a ADPSerine/threonine-protein kinase Nek2 2.7.11.1 0.654
3o7b SAHRibosomal RNA small subunit methyltransferase Nep1 / 0.654
3x2v ATPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.654
4jwh SAHtRNA (guanine(9)-N1)-methyltransferase / 0.653
1qrs ATPGlutamine--tRNA ligase 6.1.1.18 0.652
1qrt ATPGlutamine--tRNA ligase 6.1.1.18 0.652
4y6n UPGGlucosyl-3-phosphoglycerate synthase 2.4.1.266 0.652
4y6u UPGGlucosyl-3-phosphoglycerate synthase 2.4.1.266 0.652
4zme ADNMyosin heavy chain kinase A 2.7.11.7 0.652
5iqh GNPBifunctional AAC/APH 2.3.1 0.652
3idb ANPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.650