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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
1kh2 ATP Argininosuccinate synthase

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
1kh2 ATPArgininosuccinate synthase / 0.918
1j21 ATPArgininosuccinate synthase / 0.851
1j1z ATPArgininosuccinate synthase / 0.835
1kor ANPArgininosuccinate synthase / 0.804
1kh3 ANPArgininosuccinate synthase / 0.773
4xfj ANPArgininosuccinate synthase / 0.729
1kp3 ATPArgininosuccinate synthase 6.3.4.5 0.724
3nd1 SAHPrecorrin-6A synthase (Deacetylating) / 0.707
1kp2 ATPArgininosuccinate synthase 6.3.4.5 0.702
2hma SAMtRNA-specific 2-thiouridylase MnmA / 0.697
4pzk SAHPutative tRNA (cytidine(34)-2'-O)-methyltransferase / 0.696
5a7y SAHtRNA (adenine(9)-N1)-methyltransferase 2.1.1.218 0.691
2egw SAHRibosomal RNA small subunit methyltransferase E 2.1.1.193 0.687
2ejz SAHDiphthine synthase / 0.683
2z08 ATPUniversal stress protein family / 0.681
2p6i SAHDiphthine synthase / 0.680
2pca SAHDiphthine synthase / 0.680
2npn SAMPutative cobalamin synthesis related protein / 0.679
4fak SAMRibosomal RNA large subunit methyltransferase H / 0.679
1mxi SAHtRNA (cytidine(34)-2'-O)-methyltransferase / 0.678
2egv SAMRibosomal RNA small subunit methyltransferase E 2.1.1.193 0.677
2el3 SAHDiphthine synthase / 0.672
2ybo SAHMethyltransferase / 0.672
3hgm ATPTRAP-T-associated universal stress protein TeaD / 0.670
3nk7 SAM23S rRNA (adenosine(1067)-2'-O)-methyltransferase / 0.670
3nut SAHPrecorrin-3 methylase / 0.669
4cnf MTASpoU rRNA methylase / 0.669
3gyq SAM23S rRNA (adenosine(1067)-2'-O)-methyltransferase / 0.667
3rk1 ATPN-type ATP pyrophosphatase superfamily / 0.667
4cng SAHSpoU rRNA methylase / 0.667
2huv SAHDiphthine synthase / 0.666
2dek SAHDiphthine synthase / 0.664
2ek2 SAHDiphthine synthase / 0.664
2hut SAHDiphthine synthase / 0.664
1cbf SAHCobalt-precorrin-4 C(11)-methyltransferase 2.1.1.271 0.662
3tw6 ADPPyruvate carboxylase / 0.662
2cx8 SAHRibosomal RNA small subunit methyltransferase E / 0.661
3o7b SAHRibosomal RNA small subunit methyltransferase Nep1 / 0.661
1mjh ATPUniversal stress protein MJ0577 / 0.660
1cgp CMPcAMP-activated global transcriptional regulator CRP / 0.659
2z0y SAMRibosomal RNA small subunit methyltransferase E / 0.657
4kgn SAHtRNA (cytidine(34)-2'-O)-methyltransferase / 0.656
1s16 ANPDNA topoisomerase 4 subunit B / 0.655
4prx ADPDNA gyrase subunit B / 0.654
3s3t ATPUniversal stress protein / 0.653
4c5b ADPD-alanine--D-alanine ligase B 6.3.2.4 0.651
3ibq ATPPyridoxal kinase / 0.650