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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
2qmm SAM tRNA (pseudouridine(54)-N(1))-methyltransferase

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
2qmm SAMtRNA (pseudouridine(54)-N(1))-methyltransferase / 0.882
3bbd SAHRibosomal RNA small subunit methyltransferase Nep1 2.1.1 0.768
3oii SAHRibosomal RNA small subunit methyltransferase NEP1 / 0.756
3o7b SAHRibosomal RNA small subunit methyltransferase Nep1 / 0.746
2cx8 SAHRibosomal RNA small subunit methyltransferase E / 0.713
4fak SAMRibosomal RNA large subunit methyltransferase H / 0.694
2egv SAMRibosomal RNA small subunit methyltransferase E 2.1.1.193 0.691
2egw SAHRibosomal RNA small subunit methyltransferase E 2.1.1.193 0.691
4cnf MTASpoU rRNA methylase / 0.691
2ha8 SAHProbable methyltransferase TARBP1 / 0.689
4jwj SAHtRNA (guanine(9)-N1)-methyltransferase / 0.688
4cng SAHSpoU rRNA methylase / 0.685
2ioa ADPBifunctional glutathionylspermidine synthetase/amidase / 0.672
3n4k SAHtRNA (cytidine(34)-2'-O)-methyltransferase / 0.672
3nk7 SAM23S rRNA (adenosine(1067)-2'-O)-methyltransferase / 0.672
3oij SAHRibosomal RNA small subunit methyltransferase NEP1 / 0.672
1mjh ATPUniversal stress protein MJ0577 / 0.671
4x3l MTARNA 2'-O ribose methyltransferase / 0.670
2wsi FADFAD synthase 2.7.7.2 0.665
3mhy ATPNitrogen regulatory protein P-II 1 / 0.663
3wnz ADPAlanine--anticapsin ligase / 0.662
3vpb ADPGlutamate--LysW ligase ArgX 6.3.2 0.661
4kgn SAHtRNA (cytidine(34)-2'-O)-methyltransferase / 0.659
4dg3 ANPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.658
3bwj ARXcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.657
3x2w ATPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.655
2z08 ATPUniversal stress protein family / 0.654
3rk1 ATPN-type ATP pyrophosphatase superfamily / 0.654
4xbo SAHtRNA (cytidine/uridine-2'-O-)-methyltransferase TrmJ 2.1.1.200 0.654
2p0a ANPSynapsin-3 / 0.653
1iah ADPTransient receptor potential cation channel subfamily M member 7 2.7.11.1 0.651
2r7n ADP5-formaminoimidazole-4-carboxamide-1-(beta)-D-ribofuranosyl 5'-monophosphate synthetase / 0.651
3k5h ATPPhosphoribosyl-aminoimidazole carboxylase / 0.651