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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
4jwj SAH tRNA (guanine(9)-N1)-methyltransferase

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
4jwj SAHtRNA (guanine(9)-N1)-methyltransferase / 1.059
4jwh SAHtRNA (guanine(9)-N1)-methyltransferase / 0.891
4jwf SAHtRNA (guanine(9)-N1)-methyltransferase / 0.848
3bbd SAHRibosomal RNA small subunit methyltransferase Nep1 2.1.1 0.723
4pzk SAHPutative tRNA (cytidine(34)-2'-O)-methyltransferase / 0.704
4fak SAMRibosomal RNA large subunit methyltransferase H / 0.695
3o7b SAHRibosomal RNA small subunit methyltransferase Nep1 / 0.694
3n4k SAHtRNA (cytidine(34)-2'-O)-methyltransferase / 0.693
5a7y SAHtRNA (adenine(9)-N1)-methyltransferase 2.1.1.218 0.691
2qmm SAMtRNA (pseudouridine(54)-N(1))-methyltransferase / 0.688
4kgn SAHtRNA (cytidine(34)-2'-O)-methyltransferase / 0.685
2cx8 SAHRibosomal RNA small subunit methyltransferase E / 0.676
4cng SAHSpoU rRNA methylase / 0.676
4i01 CMPcAMP-activated global transcriptional regulator CRP / 0.674
2egw SAHRibosomal RNA small subunit methyltransferase E 2.1.1.193 0.671
3nk7 SAM23S rRNA (adenosine(1067)-2'-O)-methyltransferase / 0.671
4cnf MTASpoU rRNA methylase / 0.671
4jal SAHtRNA (cytidine(34)-2'-O)-methyltransferase / 0.669
2ha8 SAHProbable methyltransferase TARBP1 / 0.668
2p0a ANPSynapsin-3 / 0.665
4x3l MTARNA 2'-O ribose methyltransferase / 0.663
2hma SAMtRNA-specific 2-thiouridylase MnmA / 0.658
2z0y SAMRibosomal RNA small subunit methyltransferase E / 0.656
3vpb ADPGlutamate--LysW ligase ArgX 6.3.2 0.654
5c1p ADPD-alanine--D-alanine ligase / 0.653
3wnz ADPAlanine--anticapsin ligase / 0.651
4i0a CMPcAMP-activated global transcriptional regulator CRP / 0.651
1uam SAHtRNA (guanine-N(1)-)-methyltransferase 2.1.1.228 0.650
4h3y SAHtRNA (guanine-N(1)-)-methyltransferase / 0.650